Multiple platform build/check report for BioC 3.20 - CHECK results for biodbChebi on palomino8

Hostname	OS	Arch (*)	R version	Installed pkgs
nebbiolo2	Linux (Ubuntu 22.04.3 LTS)	x86_64	4.4.1 (2024-06-14) -- "Race for Your Life"	4683
palomino8	Windows Server 2022 Datacenter	x64	4.4.1 (2024-06-14 ucrt) -- "Race for Your Life"	4379
lconway	macOS 12.7.1 Monterey	x86_64	4.4.1 (2024-06-14) -- "Race for Your Life"	4450
kjohnson3	macOS 13.6.5 Ventura	arm64	4.4.1 (2024-06-14) -- "Race for Your Life"	4399
Click on any hostname to see more info about the system (e.g. compilers) () as reported by 'uname -p', except on Windows and Mac OS X*

CHECK results for 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: 2024-07-17 23:08:59 -0400 (Wed, 17 Jul 2024)

EndedAt: 2024-07-17 23:14:03 -0400 (Wed, 17 Jul 2024)

EllapsedTime: 303.9 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 4.31   2.64  147.91
* 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 [2024-07-17 23:12:36.701][biodb::testContext]
biodb.INFO [2024-07-17 23:12:36.704][biodb::testContext] ********************************************************************************
biodb.INFO [2024-07-17 23:12:36.706][biodb::testContext] Test context - Generic tests
biodb.INFO [2024-07-17 23:12:36.707][biodb::testContext] ********************************************************************************
biodb.INFO [2024-07-17 23:12:36.708][biodb::testContext]
biodb.INFO [2024-07-17 23:12:36.716][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.13.0.
biodb.DEBUG[2024-07-17 23:12:36.719][self$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.20-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2024-07-17 23:12:36.728][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-17 23:12:36.730][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-07-17 23:12:36.731][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-07-17 23:12:36.733][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:12:36.734][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:36.735][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:12:36.737][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-07-17 23:12:36.767][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-07-17 23:12:36.768][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:12:36.769][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:36.770][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:12:36.772][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-07-17 23:12:36.773][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-07-17 23:12:36.774][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:12:36.775][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:36.776][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:12:36.777][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-07-17 23:12:36.778][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-07-17 23:12:36.780][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-07-17 23:12:36.781][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:12:36.782][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:36.783][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:12:36.784][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-07-17 23:12:36.786][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-07-17 23:12:36.787][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-07-17 23:12:36.788][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:12:36.789][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:36.790][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:12:36.791][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-07-17 23:12:36.793][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-07-17 23:12:36.794][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:12:36.795][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:36.796][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:12:36.797][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-07-17 23:12:36.798][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-07-17 23:12:36.800][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-07-17 23:12:36.801][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:12:36.802][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:36.803][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:12:36.804][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-07-17 23:12:36.805][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-07-17 23:12:36.807][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:12:36.808][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:36.809][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[2024-07-17 23:12:36.810][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-07-17 23:12:36.811][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-07-17 23:12:36.813][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-07-17 23:12:36.814][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:12:36.815][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:36.816][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:12:36.817][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-07-17 23:12:36.818][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-07-17 23:12:36.820][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-07-17 23:12:36.821][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-07-17 23:12:36.822][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-07-17 23:12:36.823][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-07-17 23:12:36.824][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:12:36.826][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:36.827][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[2024-07-17 23:12:36.828][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-07-17 23:12:36.829][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-07-17 23:12:36.830][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:12:36.831][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:36.832][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:12:36.834][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-07-17 23:12:36.835][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-07-17 23:12:36.836][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:12:36.837][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:36.838][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:12:36.839][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-07-17 23:12:36.841][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-07-17 23:12:36.842][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:12:36.843][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:36.844][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:12:36.845][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-07-17 23:12:36.846][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-07-17 23:12:36.848][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:12:36.849][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:36.850][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[2024-07-17 23:12:36.851][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-07-17 23:12:36.852][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-07-17 23:12:36.853][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:12:36.854][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:36.855][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:12:36.857][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-07-17 23:12:36.858][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-07-17 23:12:36.863][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-07-17 23:12:36.865][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:12:36.866][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:36.867][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[2024-07-17 23:12:36.868][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-07-17 23:12:36.870][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-07-17 23:12:36.871][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-07-17 23:12:36.872][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:12:36.873][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:36.874][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:12:36.879][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-07-17 23:12:36.909][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-17 23:12:36.923][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-07-17 23:12:36.925][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-17 23:12:36.926][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-17 23:12:36.927][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-17 23:12:36.928][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-17 23:12:36.930][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-17 23:12:36.931][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-17 23:12:36.932][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-07-17 23:12:36.933][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-17 23:12:36.934][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-17 23:12:36.936][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-07-17 23:12:36.937][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-17 23:12:36.938][self$setPropertyValue]
biodb.DEBUG[2024-07-17 23:12:36.939][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-17 23:12:36.941][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-17 23:12:36.941][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-17 23:12:36.941][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-17 23:12:36.941][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-07-17 23:12:36.941][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-07-17 23:12:36.942][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-17 23:12:36.943][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 23:12:36.945][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 23:12:36.946][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-17 23:12:36.952][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 23:12:36.954][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 23:12:36.955][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-17 23:12:36.957][self$setPropertyValue]
biodb.DEBUG[2024-07-17 23:12:36.959][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-17 23:12:36.961][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-17 23:12:36.963][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-17 23:12:36.965][self$setPropertyValue]
biodb.DEBUG[2024-07-17 23:12:36.967][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-07-17 23:12:36.970][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-17 23:12:36.972][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-07-17 23:12:36.974][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-17 23:12:36.976][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-17 23:12:36.978][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-17 23:12:36.980][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-17 23:12:36.982][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-17 23:12:36.984][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-17 23:12:36.985][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-07-17 23:12:36.987][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-17 23:12:36.989][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-17 23:12:36.991][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-07-17 23:12:36.993][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-17 23:12:36.995][self$setPropertyValue]
biodb.DEBUG[2024-07-17 23:12:36.997][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-17 23:12:36.999][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-17 23:12:36.999][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-17 23:12:36.999][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-17 23:12:36.999][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-07-17 23:12:36.999][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-07-17 23:12:37.001][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-17 23:12:37.003][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 23:12:37.005][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 23:12:37.007][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-17 23:12:37.009][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 23:12:37.010][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 23:12:37.012][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-17 23:12:37.014][self$setPropertyValue]
biodb.DEBUG[2024-07-17 23:12:37.016][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-17 23:12:37.017][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-17 23:12:37.019][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-17 23:12:37.020][self$setPropertyValue]
biodb.DEBUG[2024-07-17 23:12:37.022][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-07-17 23:12:37.024][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-07-17 23:12:37.025][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-07-17 23:12:37.027][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-17 23:12:37.028][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-17 23:12:37.029][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-17 23:12:37.030][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-17 23:12:37.032][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-17 23:12:37.033][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-17 23:12:37.034][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-07-17 23:12:37.035][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-17 23:12:37.037][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-07-17 23:12:37.038][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-07-17 23:12:37.039][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-17 23:12:37.040][self$setPropertyValue]
biodb.DEBUG[2024-07-17 23:12:37.042][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-17 23:12:37.043][self$setPropertyValue]
biodb.DEBUG[2024-07-17 23:12:37.044][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-17 23:12:37.046][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 23:12:37.047][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 23:12:37.048][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-17 23:12:37.049][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 23:12:37.050][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 23:12:37.051][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-17 23:12:37.053][self$setPropertyValue]
biodb.DEBUG[2024-07-17 23:12:37.054][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-17 23:12:37.055][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-17 23:12:37.056][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-17 23:12:37.057][self$setPropertyValue]
biodb.DEBUG[2024-07-17 23:12:37.059][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-07-17 23:12:37.061][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-07-17 23:12:37.062][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-07-17 23:12:37.063][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-17 23:12:37.064][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-17 23:12:37.066][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-17 23:12:37.067][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-17 23:12:37.068][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-17 23:12:37.070][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-17 23:12:37.071][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-07-17 23:12:37.073][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-17 23:12:37.074][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-07-17 23:12:37.075][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-07-17 23:12:37.077][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-17 23:12:37.079][self$setPropertyValue]
biodb.DEBUG[2024-07-17 23:12:37.081][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-17 23:12:37.083][self$setPropertyValue]
biodb.DEBUG[2024-07-17 23:12:37.085][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-17 23:12:37.087][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 23:12:37.089][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 23:12:37.091][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-17 23:12:37.092][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 23:12:37.093][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 23:12:37.094][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-17 23:12:37.096][self$setPropertyValue]
biodb.DEBUG[2024-07-17 23:12:37.097][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-17 23:12:37.098][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-17 23:12:37.099][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-17 23:12:37.100][self$setPropertyValue]
biodb.DEBUG[2024-07-17 23:12:37.104][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-17 23:12:37.106][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:37.107][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[2024-07-17 23:12:37.108][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:12:37.109][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:12:37.110][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:12:37.112][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:37.113][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.DEBUG[2024-07-17 23:12:37.114][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:12:37.115][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:12:37.116][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:12:37.117][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:37.118][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:12:37.119][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:12:37.120][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:12:37.121][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:12:37.123][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:37.124][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:12:37.125][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:12:37.126][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:12:37.127][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:12:37.128][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:37.129][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:12:37.130][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:12:37.131][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:12:37.132][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:12:37.134][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:37.135][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:12:37.136][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:12:37.137][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:12:37.138][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:12:37.139][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:37.140][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:12:37.141][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:12:37.143][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:12:37.144][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:12:37.145][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:37.146][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:12:37.147][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:12:37.148][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:12:37.149][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:12:37.150][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:37.151][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:12:37.153][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:12:37.154][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:12:37.155][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:12:37.156][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:37.157][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:12:37.158][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:12:37.159][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:12:37.160][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:12:37.161][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:37.162][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[2024-07-17 23:12:37.163][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:12:37.165][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:12:37.166][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:12:37.167][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:37.168][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[2024-07-17 23:12:37.169][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:12:37.170][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:12:37.171][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:12:37.172][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:37.174][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[2024-07-17 23:12:37.175][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:12:37.176][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:12:37.177][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:12:37.178][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:37.180][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:12:37.181][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:12:37.183][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:12:37.185][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:12:37.187][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:37.188][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:12:37.189][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:12:37.190][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:12:37.191][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:12:37.193][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:37.194][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:12:37.195][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:12:37.196][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:12:37.197][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:12:37.198][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:37.199][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.DEBUG[2024-07-17 23:12:37.200][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:12:37.202][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:12:37.203][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:12:37.204][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:37.210][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:12:37.211][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-07-17 23:12:37.216][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-07-17 23:12:37.217][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-07-17 23:12:37.219][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-07-17 23:12:37.221][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-07-17 23:12:37.223][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-07-17 23:12:37.225][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-07-17 23:12:37.226][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-07-17 23:12:37.228][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-07-17 23:12:37.230][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-07-17 23:12:37.231][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-07-17 23:12:37.233][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-07-17 23:12:37.234][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-07-17 23:12:37.236][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-07-17 23:12:37.237][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-07-17 23:12:37.239][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-07-17 23:12:37.240][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-07-17 23:12:37.242][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-07-17 23:12:37.244][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-07-17 23:12:37.245][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-07-17 23:12:37.247][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-07-17 23:12:37.248][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-07-17 23:12:37.250][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-07-17 23:12:37.252][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-07-17 23:12:37.253][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-07-17 23:12:37.255][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-07-17 23:12:37.256][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-07-17 23:12:37.258][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-07-17 23:12:37.260][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-07-17 23:12:37.261][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-07-17 23:12:37.263][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-07-17 23:12:37.264][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-07-17 23:12:37.266][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-07-17 23:12:37.267][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-07-17 23:12:37.269][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-07-17 23:12:37.271][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-07-17 23:12:37.272][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-07-17 23:12:37.274][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-07-17 23:12:37.275][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-07-17 23:12:37.277][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-07-17 23:12:37.278][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-07-17 23:12:37.280][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-07-17 23:12:37.282][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-07-17 23:12:37.283][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-07-17 23:12:37.285][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-07-17 23:12:37.286][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-07-17 23:12:37.288][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-07-17 23:12:37.289][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-07-17 23:12:37.291][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-07-17 23:12:37.293][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-07-17 23:12:37.294][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-07-17 23:12:37.296][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-07-17 23:12:37.297][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-07-17 23:12:37.299][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-07-17 23:12:37.300][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-07-17 23:12:37.302][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-07-17 23:12:37.304][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-07-17 23:12:37.305][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-07-17 23:12:37.307][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-07-17 23:12:37.308][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-07-17 23:12:37.310][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-07-17 23:12:37.311][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-07-17 23:12:37.313][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-07-17 23:12:37.315][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-07-17 23:12:37.316][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-07-17 23:12:37.318][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-07-17 23:12:37.320][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-07-17 23:12:37.321][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-07-17 23:12:37.323][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-07-17 23:12:37.324][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-07-17 23:12:37.326][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-07-17 23:12:37.327][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-07-17 23:12:37.329][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-07-17 23:12:37.330][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-07-17 23:12:37.332][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-07-17 23:12:37.334][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-07-17 23:12:37.335][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-07-17 23:12:37.337][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-07-17 23:12:37.338][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-07-17 23:12:37.340][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-07-17 23:12:37.341][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-07-17 23:12:37.343][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-07-17 23:12:37.345][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-07-17 23:12:37.381][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-07-17 23:12:37.384][initialize] This is biodb version 1.13.0.
biodb.DEBUG[2024-07-17 23:12:37.387][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-17 23:12:37.388][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:12:37.389][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:12:37.391][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:37.392][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.DEBUG[2024-07-17 23:12:37.396][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:12:37.397][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:12:37.398][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:12:37.399][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:12:37.401][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:12:37.402][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:37.403][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:12:37.404][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:12:37.405][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:12:37.406][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:12:37.407][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:12:37.408][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:12:37.410][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:37.411][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:12:37.412][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:12:37.413][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:12:37.414][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:12:37.415][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:12:37.416][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:12:37.417][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:37.419][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:12:37.420][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:12:37.421][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:12:37.422][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:12:37.423][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:12:37.425][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:12:37.427][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:37.429][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:12:37.431][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:12:37.432][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:12:37.434][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:12:37.436][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:12:37.438][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:12:37.439][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:37.441][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:12:37.443][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:12:37.453][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:12:37.455][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:12:37.457][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:12:37.458][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:12:37.460][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:37.462][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:12:37.464][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:12:37.465][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:12:37.467][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:12:37.469][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:12:37.470][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:12:37.472][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:37.474][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[2024-07-17 23:12:37.476][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:12:37.477][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:12:37.479][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:12:37.481][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:12:37.482][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:12:37.484][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:37.486][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:12:37.487][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:12:37.489][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:12:37.491][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:12:37.493][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:12:37.495][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:12:37.497][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:37.499][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:12:37.500][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:12:37.502][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:12:37.504][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:12:37.506][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:12:37.508][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:12:37.509][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:37.511][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:12:37.513][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:12:37.515][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:12:37.516][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:12:37.518][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:12:37.520][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:12:37.522][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:37.524][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:12:37.525][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:12:37.527][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:12:37.529][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:12:37.531][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:12:37.533][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:12:37.534][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:37.536][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:12:37.538][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:12:37.540][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:12:37.542][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:12:37.544][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:12:37.545][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:12:37.547][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:37.549][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[2024-07-17 23:12:37.551][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:12:37.552][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:12:37.553][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:12:37.554][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:12:37.556][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:12:37.557][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:37.558][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:12:37.559][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:12:37.560][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:12:37.561][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:12:37.562][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:12:37.564][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:12:37.565][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:37.566][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[2024-07-17 23:12:37.567][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:12:37.568][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:12:37.569][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:12:37.570][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:12:37.572][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:12:37.573][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:37.574][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[2024-07-17 23:12:37.576][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:12:37.577][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:12:37.578][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:12:37.579][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:12:37.581][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:12:37.582][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:37.583][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[2024-07-17 23:12:37.586][biodb$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.20-bioc/R/library/biodbChebi/definitions.yml".
biodb.DEBUG[2024-07-17 23:12:37.596][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2024-07-17 23:12:37.599][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-17 23:12:37.601][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-07-17 23:12:37.603][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-17 23:12:37.606][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-17 23:12:37.608][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-17 23:12:37.610][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-17 23:12:37.611][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-07-17 23:12:37.612][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2024-07-17 23:12:37.613][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-07-17 23:12:37.614][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-17 23:12:37.616][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-17 23:12:37.617][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2024-07-17 23:12:37.618][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-17 23:12:37.619][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2024-07-17 23:12:37.619][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2024-07-17 23:12:37.619][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2024-07-17 23:12:37.619][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2024-07-17 23:12:37.619][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2024-07-17 23:12:37.619][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2024-07-17 23:12:37.619][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2024-07-17 23:12:37.619][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2024-07-17 23:12:37.619][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2024-07-17 23:12:37.619][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2024-07-17 23:12:37.619][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2024-07-17 23:12:37.621][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-07-17 23:12:37.622][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-17 23:12:37.622][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-17 23:12:37.622][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-17 23:12:37.623][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-07-17 23:12:37.625][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 23:12:37.626][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 23:12:37.627][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-17 23:12:37.628][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 23:12:37.629][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 23:12:37.630][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-17 23:12:37.632][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-17 23:12:37.632][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2024-07-17 23:12:37.633][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-17 23:12:37.634][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-17 23:12:37.635][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-07-17 23:12:37.636][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2024-07-17 23:12:37.636][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2024-07-17 23:12:37.642][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-07-17 23:12:37.644][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-07-17 23:12:37.646][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2024-07-17 23:12:37.647][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-07-17 23:12:37.650][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-07-17 23:12:37.653][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-07-17 23:12:37.689][super$initialize] Initialize connector chebi.
biodb.DEBUG[2024-07-17 23:12:37.691][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2024-07-17 23:12:37.695][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2024-07-17 23:12:37.698][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2024-07-17 23:12:37.702][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-17 23:12:37.703][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-17 23:12:37.705][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2024-07-17 23:12:37.706][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2024-07-17 23:12:37.717][biodb::testThat]
biodb.INFO [2024-07-17 23:12:37.718][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2024-07-17 23:12:37.719][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-17 23:12:37.721][biodb::testThat]
biodb.TRACE[2024-07-17 23:12:37.771][loadFileContents] Loaded 1 files from cache: [1]: "F:/biocbuild/bbs-3.20-bioc/R/library/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2024-07-17 23:12:37.773][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-17 23:12:37.777][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-17 23:12:37.785][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:12:37.787][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:12:37.789][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:12:37.813][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:12:37.815][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:12:37.817][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:37.819][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:12:37.830][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:37.832][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:37.834][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:37.836][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:37.840][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:37.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:37.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:37.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:37.866][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-17 23:12:37.868][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-17 23:12:37.870][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:37.872][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:37.915][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-17 23:12:37.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-17 23:12:37.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:37.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:37.925][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 23:12:37.927][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 23:12:37.929][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:37.931][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:37.933][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 23:12:37.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 23:12:37.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:37.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:37.942][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 23:12:37.944][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 23:12:37.945][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:37.947][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:37.949][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 23:12:37.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 23:12:37.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:37.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:37.957][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 23:12:37.959][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 23:12:37.961][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:37.963][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:37.965][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 23:12:37.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 23:12:37.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:37.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:37.973][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:12:37.975][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:12:37.977][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:37.979][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:37.981][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:12:37.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:12:37.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:37.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:37.989][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-17 23:12:37.991][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:37.992][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:37.993][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:37.995][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-17 23:12:37.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:37.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:37.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.000][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:12:38.001][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:12:38.002][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.004][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.005][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:12:38.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:12:38.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.010][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-17 23:12:38.012][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 23:12:38.013][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.014][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.016][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 23:12:38.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 23:12:38.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.057][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-17 23:12:38.058][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-17 23:12:38.060][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.061][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.062][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-17 23:12:38.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-17 23:12:38.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.067][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 23:12:38.069][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 23:12:38.070][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.071][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.072][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 23:12:38.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 23:12:38.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.078][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:12:38.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:12:38.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.083][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:12:38.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:12:38.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.088][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:38.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:38.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.092][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:12:38.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:12:38.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.097][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:38.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:38.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.102][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:38.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:38.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.107][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:38.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:38.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.140][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:38.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:38.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.145][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:38.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:38.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.150][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:38.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:38.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:12:38.155][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2024-07-17 23:12:38.164][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 23:12:38.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 23:12:38.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.169][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 23:12:38.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 23:12:38.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.215][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 23:12:38.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 23:12:38.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.221][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 23:12:38.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 23:12:38.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.226][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:38.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:38.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.231][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:38.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:38.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.236][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-07-17 23:12:38.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-07-17 23:12:38.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.241][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-07-17 23:12:38.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-07-17 23:12:38.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.247][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-07-17 23:12:38.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-07-17 23:12:38.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.252][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-07-17 23:12:38.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-07-17 23:12:38.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.289][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:38.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:38.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.322][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:12:38.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:12:38.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.338][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:38.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:38.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.343][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:38.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:38.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.348][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:38.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:38.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.356][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:38.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:38.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.361][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:38.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:38.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.368][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:38.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:38.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.375][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:12:38.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:12:38.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.381][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:12:38.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:12:38.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.387][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:12:38.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:12:38.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.416][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:38.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:38.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.421][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:38.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:38.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.426][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:38.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:38.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.431][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:38.433][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:38.434][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.435][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.436][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:38.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:38.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.460][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:12:38.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:12:38.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.468][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:12:38.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:12:38.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.477][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:12:38.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:12:38.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.485][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:12:38.487][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:12:38.488][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.490][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.491][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:12:38.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:12:38.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.507][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 23:12:38.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 23:12:38.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.512][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 23:12:38.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 23:12:38.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.517][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 23:12:38.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 23:12:38.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.522][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-17 23:12:38.523][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 23:12:38.524][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.525][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.527][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 23:12:38.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 23:12:38.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.547][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 23:12:38.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 23:12:38.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.552][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 23:12:38.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 23:12:38.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.557][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 23:12:38.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 23:12:38.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.562][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 23:12:38.563][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 23:12:38.564][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.565][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.566][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 23:12:38.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 23:12:38.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.581][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:38.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:38.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.586][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:38.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:38.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.591][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:38.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:38.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.596][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:38.598][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:38.599][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.600][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.601][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:38.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:38.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.616][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:12:38.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:12:38.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.622][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:12:38.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:12:38.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.627][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:12:38.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:12:38.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.632][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:12:38.633][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:12:38.634][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.636][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.637][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:12:38.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:12:38.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.660][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-17 23:12:38.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-17 23:12:38.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.675][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-17 23:12:38.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-17 23:12:38.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.683][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-17 23:12:38.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-17 23:12:38.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.691][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-17 23:12:38.693][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-17 23:12:38.695][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.697][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.698][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-17 23:12:38.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-17 23:12:38.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.713][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-17 23:12:38.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-17 23:12:38.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.718][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-17 23:12:38.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-17 23:12:38.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.725][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-17 23:12:38.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-17 23:12:38.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.733][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-17 23:12:38.735][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-17 23:12:38.737][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.739][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.741][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-17 23:12:38.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-17 23:12:38.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.779][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:12:38.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:12:38.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.787][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:12:38.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:12:38.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.795][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:12:38.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:12:38.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.803][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:12:38.805][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:12:38.807][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.809][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.811][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:12:38.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:12:38.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.838][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 23:12:38.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 23:12:38.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.847][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 23:12:38.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 23:12:38.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.855][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 23:12:38.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 23:12:38.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.863][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 23:12:38.865][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 23:12:38.866][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.867][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.869][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 23:12:38.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 23:12:38.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.883][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 23:12:38.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 23:12:38.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.889][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 23:12:38.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 23:12:38.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.894][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 23:12:38.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 23:12:38.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.899][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 23:12:38.900][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 23:12:38.902][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.903][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.904][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 23:12:38.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 23:12:38.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.931][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 23:12:38.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 23:12:38.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.942][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 23:12:38.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 23:12:38.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.947][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 23:12:38.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 23:12:38.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.951][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 23:12:38.953][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 23:12:38.954][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.955][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.956][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 23:12:38.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 23:12:38.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.971][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:38.973][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:38.974][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.975][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:38.988][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-17 23:12:38.989][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-17 23:12:38.990][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:38.992][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:39.020][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 23:12:39.021][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 23:12:39.023][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:39.024][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:39.031][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 23:12:39.032][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 23:12:39.033][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:39.034][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:39.047][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 23:12:39.049][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 23:12:39.051][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:39.052][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:39.070][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:12:39.072][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:12:39.073][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:39.074][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:39.086][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:39.087][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:39.088][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:39.089][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:39.097][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:12:39.099][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:12:39.100][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:39.101][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:39.108][ef$get] Asked field names are: n.stars.
biodb.TRACE[2024-07-17 23:12:39.109][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-17 23:12:39.110][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:39.112][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:39.122][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-17 23:12:39.123][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 23:12:39.125][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:39.126][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:39.142][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 23:12:39.144][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 23:12:39.145][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:39.146][ef$get] fields variable is a list.
biodb.INFO [2024-07-17 23:12:39.171][biodb::testThat]
biodb.INFO [2024-07-17 23:12:39.172][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2024-07-17 23:12:39.173][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-17 23:12:39.175][biodb::testThat]
biodb.DEBUG[2024-07-17 23:12:39.187][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2024-07-17 23:12:39.194][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-17 23:12:39.200][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15440".
biodb.TRACE[2024-07-17 23:12:39.202][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-17 23:12:39.205][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml".
biodb.DEBUG[2024-07-17 23:12:39.212][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-17 23:12:39.233][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-17 23:12:39.235][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-17 23:12:39.237][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:12:39.238][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:12:39.239][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:12:39.246][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:12:39.248][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:12:39.249][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:39.250][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:12:39.254][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:39.256][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:39.257][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:39.259][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:39.262][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:39.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:39.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:39.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:39.293][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-17 23:12:39.296][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-17 23:12:39.298][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:39.300][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:39.302][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-17 23:12:39.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-17 23:12:39.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:39.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:39.310][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 23:12:39.312][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 23:12:39.314][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:39.316][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:39.318][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 23:12:39.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 23:12:39.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:39.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:39.326][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 23:12:39.328][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 23:12:39.330][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:39.332][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:39.334][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 23:12:39.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 23:12:39.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:39.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:39.342][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 23:12:39.344][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 23:12:39.346][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:39.348][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:39.350][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 23:12:39.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 23:12:39.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:39.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:39.358][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:12:39.360][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:12:39.362][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:39.363][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:39.364][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:12:39.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:12:39.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:39.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:39.370][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-17 23:12:39.371][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:39.372][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:39.373][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:39.375][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-17 23:12:39.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:39.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:39.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:39.380][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:12:39.381][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:12:39.382][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:39.383][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:39.385][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:12:39.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:12:39.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:39.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:39.390][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-17 23:12:39.391][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 23:12:39.397][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:39.398][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:39.400][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 23:12:39.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 23:12:39.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:39.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:39.405][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-17 23:12:39.406][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-17 23:12:39.408][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:39.409][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:39.412][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-17 23:12:39.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-17 23:12:39.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:39.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:39.417][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 23:12:39.418][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 23:12:39.420][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:39.421][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:39.422][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 23:12:39.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 23:12:39.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:39.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:39.428][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:12:39.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:12:39.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:39.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:39.433][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:12:39.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:12:39.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:39.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:39.438][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:39.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:39.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:39.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:39.443][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:12:39.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:12:39.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:39.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:39.448][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:39.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:39.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:39.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:39.452][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:39.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:39.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:39.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:39.457][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:39.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:39.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:39.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:39.462][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:39.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:39.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:39.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:39.467][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:39.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:39.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:39.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:39.472][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:39.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:39.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:39.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:12:39.477][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2024-07-17 23:12:39.479][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2024-07-17 23:12:39.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2024-07-17 23:12:39.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:39.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:39.483][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2024-07-17 23:12:39.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2024-07-17 23:12:39.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:39.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:39.488][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2024-07-17 23:12:39.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2024-07-17 23:12:39.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:39.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-07-17 23:12:39.517][biodb::testThat]
biodb.INFO [2024-07-17 23:12:39.519][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2024-07-17 23:12:39.520][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-17 23:12:39.521][biodb::testThat]
biodb.TRACE[2024-07-17 23:12:39.525][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-17 23:12:39.526][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 23:12:39.527][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:39.528][ef$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:12:39.530][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2024-07-17 23:12:39.579][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 23:12:39.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 23:12:39.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:39.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:39.584][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 23:12:39.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 23:12:39.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:39.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:39.589][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 23:12:39.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 23:12:39.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:39.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:12:39.602][function(conn, opt)] With value "squalene".
biodb.DEBUG[2024-07-17 23:12:39.606][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2024-07-17 23:12:39.625][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-17 23:12:39.639][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2024-07-17 23:12:39.641][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-17 23:12:39.644][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2024-07-17 23:12:39.914][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[2024-07-17 23:12:39.921][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-17 23:12:39.923][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-17 23:12:39.926][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL%20NAMES&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-07-17 23:12:40.578][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL%20NAMES&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-07-17 23:12:41.099][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-17 23:12:41.102][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content"
biodb.TRACE[2024-07-17 23:12:41.116][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.request"
biodb.DEBUG[2024-07-17 23:12:41.120][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2024-07-17 23:12:44.568][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:12:44.570][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:12:44.571][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:44.572][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:44.574][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:44.575][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:44.576][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:44.577][ef$get] fields variable is a list.
biodb.INFO [2024-07-17 23:12:44.592][biodb::testThat]
biodb.INFO [2024-07-17 23:12:44.593][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2024-07-17 23:12:44.595][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-17 23:12:44.596][biodb::testThat]
biodb.TRACE[2024-07-17 23:12:44.677][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 23:12:44.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 23:12:44.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:44.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:44.682][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 23:12:44.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 23:12:44.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:44.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:44.687][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 23:12:44.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 23:12:44.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:44.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:12:44.770][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-17 23:12:44.774][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-17 23:12:44.776][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-07-17 23:12:44.778][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-17 23:12:44.780][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.INFO [2024-07-17 23:12:44.820][biodb::testThat]
biodb.INFO [2024-07-17 23:12:44.821][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2024-07-17 23:12:44.822][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-17 23:12:44.824][biodb::testThat]
biodb.TRACE[2024-07-17 23:12:44.851][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 23:12:44.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 23:12:44.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:44.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:44.856][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 23:12:44.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 23:12:44.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:44.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:44.861][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 23:12:44.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 23:12:44.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:44.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:44.866][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 23:12:44.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 23:12:44.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:44.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:44.871][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:44.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:44.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:44.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:44.876][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:44.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:44.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:44.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:44.881][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-07-17 23:12:44.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-07-17 23:12:44.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:44.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:44.886][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-07-17 23:12:44.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-07-17 23:12:44.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:44.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:44.892][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-07-17 23:12:44.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-07-17 23:12:44.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:44.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:44.897][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-07-17 23:12:44.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-07-17 23:12:44.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:44.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:44.924][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 23:12:44.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 23:12:44.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:44.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:44.930][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 23:12:44.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 23:12:44.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:44.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:44.935][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 23:12:44.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 23:12:44.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:44.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:44.940][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 23:12:44.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 23:12:44.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:44.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:44.945][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:44.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:44.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:44.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:44.950][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:44.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:44.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:44.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:44.955][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-07-17 23:12:44.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-07-17 23:12:44.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:44.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:44.960][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2024-07-17 23:12:44.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2024-07-17 23:12:44.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:44.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:44.965][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2024-07-17 23:12:44.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2024-07-17 23:12:44.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:44.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:44.970][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2024-07-17 23:12:44.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2024-07-17 23:12:44.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:44.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-07-17 23:12:44.985][biodb::testThat]
biodb.INFO [2024-07-17 23:12:44.986][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2024-07-17 23:12:44.988][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-17 23:12:44.989][biodb::testThat]
biodb.INFO [2024-07-17 23:12:45.001][biodb::testThat]
biodb.INFO [2024-07-17 23:12:45.002][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2024-07-17 23:12:45.003][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-17 23:12:45.005][biodb::testThat]
biodb.INFO [2024-07-17 23:12:45.018][biodb::testThat]
biodb.INFO [2024-07-17 23:12:45.019][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2024-07-17 23:12:45.020][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-17 23:12:45.022][biodb::testThat]
biodb.DEBUG[2024-07-17 23:12:45.026][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
biodb.DEBUG[2024-07-17 23:12:45.533][getUrlContent] Use RCurl for downloading content of URL https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440.
biodb.INFO [2024-07-17 23:12:46.413][biodb::testThat]
biodb.INFO [2024-07-17 23:12:46.414][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2024-07-17 23:12:46.416][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-17 23:12:46.422][biodb::testThat]
biodb.DEBUG[2024-07-17 23:12:46.825][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[2024-07-17 23:12:47.280][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-17 23:12:47.282][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 23:12:47.283][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:47.284][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:47.286][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:12:47.287][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:12:47.288][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:47.289][ef$get] fields variable is a list.
biodb.INFO [2024-07-17 23:12:47.292][biodb::testThat]
biodb.INFO [2024-07-17 23:12:47.294][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2024-07-17 23:12:47.295][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-17 23:12:47.296][biodb::testThat]
biodb.TRACE[2024-07-17 23:12:47.318][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 23:12:47.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 23:12:47.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:47.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:47.324][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 23:12:47.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 23:12:47.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:47.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:47.329][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 23:12:47.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 23:12:47.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:47.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:12:47.423][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-17 23:12:47.427][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-17 23:12:47.429][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-07-17 23:12:47.431][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-17 23:12:47.433][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-07-17 23:12:47.497][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-17 23:12:47.501][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-17 23:12:47.502][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-07-17 23:12:47.504][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-17 23:12:47.506][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.TRACE[2024-07-17 23:12:47.554][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-17 23:12:47.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-17 23:12:47.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:47.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:47.573][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:47.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:47.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:47.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:47.578][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:47.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:47.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:47.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:47.583][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:47.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:47.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:47.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:47.589][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:47.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:47.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:47.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:47.593][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:47.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:47.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:47.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:12:47.605][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-17 23:12:47.609][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-17 23:12:47.611][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2024-07-17 23:12:47.613][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-17 23:12:47.623][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2024-07-17 23:12:47.626][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:12:47.627][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:12:47.628][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:12:47.657][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:12:47.658][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:12:47.659][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:47.661][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:12:47.662][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2024-07-17 23:12:47.707][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-17 23:12:47.710][cch$loadFileContent] Trying to load 1 files from cache: [1]: "192288".
biodb.TRACE[2024-07-17 23:12:47.711][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-17 23:12:47.713][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-17 23:12:47.714][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-17 23:12:47.716][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-17 23:12:47.717][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-17 23:12:47.718][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-17 23:12:47.721][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:12:47.722][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:12:47.723][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:12:47.731][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:12:47.732][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:12:47.733][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:47.735][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:12:47.736][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=192288".
biodb.DEBUG[2024-07-17 23:12:47.752][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-17 23:12:47.754][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-17 23:12:47.775][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=192288".
biodb.TRACE[2024-07-17 23:12:48.139][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=192288).
biodb.DEBUG[2024-07-17 23:12:48.506][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-17 23:12:48.509][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7e76f7a384ab933ed01801c92c3eec77.content"
biodb.TRACE[2024-07-17 23:12:48.514][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7e76f7a384ab933ed01801c92c3eec77.request"
biodb.TRACE[2024-07-17 23:12:48.519][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml"
biodb.DEBUG[2024-07-17 23:12:48.521][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-17 23:12:48.523][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-17 23:12:48.525][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-17 23:12:48.527][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:12:48.528][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:12:48.529][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:12:48.542][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:12:48.543][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:12:48.545][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:48.546][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:12:48.549][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:48.550][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:48.551][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:48.552][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:48.554][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:48.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:48.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:48.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:48.560][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-17 23:12:48.561][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-17 23:12:48.562][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:48.564][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:48.565][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-17 23:12:48.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-17 23:12:48.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:48.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:48.570][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 23:12:48.571][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 23:12:48.573][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:48.574][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:48.576][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 23:12:48.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 23:12:48.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:48.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:48.581][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 23:12:48.582][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 23:12:48.584][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:48.585][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:48.586][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 23:12:48.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 23:12:48.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:48.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:48.592][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 23:12:48.593][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 23:12:48.594][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:48.595][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:48.597][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 23:12:48.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 23:12:48.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:48.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:48.602][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:12:48.604][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:12:48.605][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:48.606][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:48.608][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-17 23:12:48.609][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:48.610][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:48.618][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:48.620][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-17 23:12:48.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:48.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:48.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:48.625][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:12:48.626][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:12:48.628][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:48.629][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:48.631][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:12:48.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:12:48.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:48.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:48.636][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-17 23:12:48.637][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 23:12:48.639][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:48.640][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:48.642][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 23:12:48.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 23:12:48.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:48.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:48.647][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-17 23:12:48.648][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-17 23:12:48.649][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:48.651][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:48.652][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-17 23:12:48.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-17 23:12:48.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:48.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:48.657][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 23:12:48.659][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 23:12:48.660][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:48.661][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:48.663][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 23:12:48.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 23:12:48.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:48.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:48.668][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:12:48.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:12:48.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:48.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:48.673][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:12:48.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:12:48.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:48.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:48.678][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:48.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:48.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:48.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:48.684][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:12:48.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:12:48.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:48.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:48.689][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:48.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:48.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:48.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:48.694][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:48.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:48.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:48.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:48.699][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:48.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:48.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:48.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:48.704][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:48.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:48.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:48.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:48.709][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:48.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:48.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:48.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:48.714][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:48.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:48.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:48.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:12:48.719][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2024-07-17 23:12:48.734][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:48.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:48.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:48.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:48.739][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:48.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:48.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:48.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:48.744][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:48.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:48.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:48.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:12:48.751][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-17 23:12:48.756][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-17 23:12:48.757][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2024-07-17 23:12:48.759][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-17 23:12:48.771][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2024-07-17 23:12:48.787][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:12:48.789][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:12:48.791][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:12:48.800][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:12:48.801][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:12:48.802][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:48.803][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:12:48.805][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:48.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:48.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:48.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:48.810][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:48.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:48.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:48.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:48.815][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:48.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:48.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:48.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:12:48.820][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:12:48.821][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:12:48.822][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:12:48.829][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:12:48.831][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:12:48.832][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:48.833][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:12:48.834][private$loadEntries] Creating entries from ids [1]: "209892".
biodb.DEBUG[2024-07-17 23:12:48.835][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-17 23:12:48.837][cch$loadFileContent] Trying to load 1 files from cache: [1]: "209892".
biodb.TRACE[2024-07-17 23:12:48.839][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-17 23:12:48.841][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-17 23:12:48.842][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-17 23:12:48.843][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-17 23:12:48.845][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-17 23:12:48.846][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-17 23:12:48.864][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:12:48.865][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:12:48.866][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:12:48.873][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:12:48.874][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:12:48.875][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:48.877][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:12:48.878][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=209892".
biodb.DEBUG[2024-07-17 23:12:48.881][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-17 23:12:48.883][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-17 23:12:48.884][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=209892".
biodb.TRACE[2024-07-17 23:12:49.245][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=209892).
biodb.DEBUG[2024-07-17 23:12:49.612][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-17 23:12:49.615][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7a3362365076d47cdf0955cccdd37bcf.content"
biodb.TRACE[2024-07-17 23:12:49.619][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7a3362365076d47cdf0955cccdd37bcf.request"
biodb.TRACE[2024-07-17 23:12:49.623][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/209892.xml"
biodb.DEBUG[2024-07-17 23:12:49.626][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-17 23:12:49.628][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-17 23:12:49.629][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-17 23:12:49.631][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:12:49.633][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:12:49.634][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:12:49.645][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:12:49.647][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:12:49.648][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:49.649][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:12:49.652][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:49.653][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:49.655][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:49.656][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:49.657][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:49.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:49.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:49.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:49.663][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-17 23:12:49.664][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-17 23:12:49.665][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:49.667][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:49.669][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-17 23:12:49.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-17 23:12:49.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:49.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:49.674][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 23:12:49.675][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 23:12:49.677][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:49.678][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:49.680][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 23:12:49.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 23:12:49.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:49.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:49.685][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 23:12:49.687][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 23:12:49.688][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:49.689][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:49.690][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 23:12:49.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 23:12:49.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:49.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:49.696][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 23:12:49.697][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 23:12:49.698][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:49.700][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:49.701][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 23:12:49.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 23:12:49.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:49.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:49.713][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:12:49.714][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:12:49.716][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:49.717][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:49.718][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-17 23:12:49.720][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:49.721][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:49.722][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:49.724][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-17 23:12:49.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:49.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:49.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:49.729][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:12:49.731][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:12:49.732][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:49.733][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:49.735][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:12:49.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:12:49.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:49.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:49.740][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-17 23:12:49.741][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 23:12:49.743][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:49.744][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:49.746][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 23:12:49.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 23:12:49.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:49.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:49.751][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-17 23:12:49.753][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-17 23:12:49.754][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:49.755][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:49.756][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-17 23:12:49.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-17 23:12:49.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:49.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:49.761][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 23:12:49.763][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 23:12:49.764][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:49.765][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:49.767][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 23:12:49.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 23:12:49.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:49.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:49.772][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:12:49.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:12:49.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:49.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:49.777][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:12:49.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:12:49.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:49.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:49.782][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:49.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:49.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:49.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:49.788][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:12:49.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:12:49.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:49.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:49.793][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:49.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:49.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:49.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:49.798][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:49.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:49.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:49.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:49.803][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:49.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:49.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:49.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:49.809][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:49.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:49.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:49.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:49.814][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:49.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:49.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:49.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:49.819][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:49.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:49.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:49.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:12:49.850][self$createEntryFromContent] Accession numbers: 209892.
biodb.TRACE[2024-07-17 23:12:49.852][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:49.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:49.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:49.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:49.857][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:49.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:49.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:49.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:49.863][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:49.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:49.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:49.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:12:49.900][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-17 23:12:49.904][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-17 23:12:49.906][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-07-17 23:12:49.907][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-17 23:12:49.909][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-07-17 23:12:49.913][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:12:49.914][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:12:49.915][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:12:49.924][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:12:49.925][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:12:49.926][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:49.928][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:12:49.929][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:49.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:49.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:49.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:49.934][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:49.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:49.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:49.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:49.939][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:49.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:49.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:49.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:12:49.944][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:12:49.945][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:12:49.946][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:12:49.958][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:12:49.959][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:12:49.960][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:49.961][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:12:49.963][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2024-07-17 23:12:49.964][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-17 23:12:49.966][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26747".
biodb.TRACE[2024-07-17 23:12:49.967][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-17 23:12:49.969][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-17 23:12:49.970][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-17 23:12:49.971][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-17 23:12:49.973][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-17 23:12:49.974][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-17 23:12:49.977][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:12:49.978][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:12:49.979][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:12:49.998][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:12:49.999][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:12:50.000][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:50.006][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:12:50.008][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=26747".
biodb.DEBUG[2024-07-17 23:12:50.013][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-17 23:12:50.015][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-17 23:12:50.018][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=26747".
biodb.TRACE[2024-07-17 23:12:50.381][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=26747).
biodb.DEBUG[2024-07-17 23:12:50.751][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-17 23:12:50.754][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/462a35453014388bd90df1c9e4ade520.content"
biodb.TRACE[2024-07-17 23:12:50.759][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/462a35453014388bd90df1c9e4ade520.request"
biodb.TRACE[2024-07-17 23:12:50.763][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml"
biodb.DEBUG[2024-07-17 23:12:50.765][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-17 23:12:50.767][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-17 23:12:50.768][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-17 23:12:50.770][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:12:50.771][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:12:50.773][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:12:50.792][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:12:50.793][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:12:50.794][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:50.795][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:12:50.798][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:50.799][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:50.800][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:50.801][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:50.803][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:50.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:50.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:50.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:50.808][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-17 23:12:50.809][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-17 23:12:50.810][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:50.811][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:50.813][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 23:12:50.814][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 23:12:50.815][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:50.817][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:50.818][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 23:12:50.820][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 23:12:50.821][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:50.822][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:50.823][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 23:12:50.825][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 23:12:50.826][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:50.827][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:50.828][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:12:50.830][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:12:50.831][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:50.832][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:50.833][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-17 23:12:50.835][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:50.836][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:50.837][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:50.839][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:12:50.840][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:12:50.841][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:50.842][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:50.844][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-17 23:12:50.845][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 23:12:50.846][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:50.847][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:50.849][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 23:12:50.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 23:12:50.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:50.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:50.854][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-17 23:12:50.855][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-17 23:12:50.856][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:50.857][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:50.859][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-17 23:12:50.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-17 23:12:50.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:50.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:50.864][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 23:12:50.865][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 23:12:50.866][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:50.867][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:50.869][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:12:50.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:12:50.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:50.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:50.881][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:12:50.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:12:50.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:50.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:50.886][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:50.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:50.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:50.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:50.891][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:12:50.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:12:50.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:50.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:50.896][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:50.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:50.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:50.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:50.901][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:50.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:50.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:50.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:50.906][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:50.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:50.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:50.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:50.911][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:50.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:50.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:50.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:50.916][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:50.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:50.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:50.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:50.921][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:50.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:50.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:50.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:12:50.925][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2024-07-17 23:12:50.927][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:50.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:50.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:50.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:50.932][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:50.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:50.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:50.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:50.937][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:50.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:50.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:50.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:50.941][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:50.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:50.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:50.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:50.946][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:50.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:50.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:50.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:12:50.952][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:12:50.953][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:12:50.954][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:12:50.972][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:12:50.973][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:12:50.975][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:50.976][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:12:50.977][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2024-07-17 23:12:50.978][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-17 23:12:50.980][cch$loadFileContent] Trying to load 1 files from cache: [1]: "59285".
biodb.TRACE[2024-07-17 23:12:50.983][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-17 23:12:50.984][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-17 23:12:50.986][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-17 23:12:50.987][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-17 23:12:50.988][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-17 23:12:50.989][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-17 23:12:50.992][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:12:50.993][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:12:50.994][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:12:51.002][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:12:51.003][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:12:51.009][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:51.010][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:12:51.012][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=59285".
biodb.DEBUG[2024-07-17 23:12:51.016][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-17 23:12:51.017][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-17 23:12:51.019][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=59285".
biodb.TRACE[2024-07-17 23:12:51.382][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=59285).
biodb.DEBUG[2024-07-17 23:12:51.757][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-17 23:12:51.760][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a390fa120be311b7c431851d8d66d5ac.content"
biodb.TRACE[2024-07-17 23:12:51.765][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a390fa120be311b7c431851d8d66d5ac.request"
biodb.TRACE[2024-07-17 23:12:51.769][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml"
biodb.DEBUG[2024-07-17 23:12:51.772][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-17 23:12:51.774][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-17 23:12:51.775][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-17 23:12:51.777][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:12:51.778][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:12:51.779][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:12:51.794][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:12:51.796][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:12:51.797][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:51.798][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:12:51.801][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:51.803][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:51.804][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:51.805][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:51.807][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:51.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:51.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:51.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:51.812][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-17 23:12:51.813][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-17 23:12:51.815][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:51.816][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:51.818][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 23:12:51.819][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 23:12:51.820][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:51.821][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:51.823][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 23:12:51.825][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 23:12:51.826][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:51.827][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:51.829][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 23:12:51.830][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 23:12:51.831][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:51.832][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:51.834][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:12:51.835][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:12:51.837][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:51.838][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:51.839][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-17 23:12:51.841][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:51.842][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:51.843][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:51.845][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:12:51.846][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:12:51.847][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:51.849][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:51.850][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-17 23:12:51.851][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 23:12:51.853][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:51.854][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:51.856][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 23:12:51.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 23:12:51.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:51.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:51.861][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-17 23:12:51.863][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-17 23:12:51.864][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:51.865][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:51.867][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-17 23:12:51.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-17 23:12:51.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:51.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:51.872][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 23:12:51.874][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 23:12:51.875][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:51.883][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:51.884][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:12:51.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:12:51.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:51.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:51.890][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:12:51.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:12:51.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:51.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:51.895][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:51.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:51.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:51.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:51.900][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:12:51.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:12:51.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:51.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:51.906][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:51.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:51.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:51.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:51.911][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:51.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:51.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:51.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:51.916][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:51.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:51.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:51.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:51.923][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:51.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:51.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:51.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:51.928][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:51.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:51.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:51.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:51.933][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:51.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:51.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:51.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:12:51.938][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2024-07-17 23:12:51.940][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:51.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:51.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:51.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:51.945][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:51.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:51.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:51.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:51.950][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:51.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:51.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:51.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:51.956][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:51.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:51.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:51.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:51.961][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:51.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:51.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:51.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:12:51.966][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:12:51.967][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:12:51.969][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:12:51.985][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:12:51.987][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:12:51.988][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:51.989][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:12:51.991][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2024-07-17 23:12:51.993][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-17 23:12:51.996][cch$loadFileContent] Trying to load 1 files from cache: [1]: "75174".
biodb.TRACE[2024-07-17 23:12:51.998][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-17 23:12:52.000][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-17 23:12:52.003][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-17 23:12:52.004][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-17 23:12:52.006][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-17 23:12:52.007][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-17 23:12:52.010][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:12:52.012][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:12:52.013][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:12:52.034][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:12:52.037][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:12:52.039][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:52.041][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:12:52.044][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75174".
biodb.DEBUG[2024-07-17 23:12:52.050][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-17 23:12:52.052][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-17 23:12:52.055][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75174".
biodb.TRACE[2024-07-17 23:12:52.429][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75174).
biodb.DEBUG[2024-07-17 23:12:52.791][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-17 23:12:52.794][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/379ec57940c7734782bc4c07c7e15a9b.content"
biodb.TRACE[2024-07-17 23:12:52.799][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/379ec57940c7734782bc4c07c7e15a9b.request"
biodb.TRACE[2024-07-17 23:12:52.803][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml"
biodb.DEBUG[2024-07-17 23:12:52.806][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-17 23:12:52.808][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-17 23:12:52.809][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-17 23:12:52.811][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:12:52.812][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:12:52.814][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:12:52.829][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:12:52.831][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:12:52.832][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:52.834][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:12:52.836][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:52.838][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:52.839][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:52.840][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:52.842][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:52.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:52.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:52.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:52.847][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-17 23:12:52.849][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-17 23:12:52.850][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:52.851][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:52.853][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 23:12:52.854][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 23:12:52.855][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:52.857][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:52.858][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 23:12:52.860][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 23:12:52.861][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:52.862][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:52.864][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 23:12:52.865][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 23:12:52.866][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:52.867][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:52.869][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:12:52.871][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:12:52.872][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:52.873][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:52.875][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-17 23:12:52.876][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:52.877][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:52.879][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:52.880][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:12:52.882][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:12:52.883][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:52.884][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:52.886][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-17 23:12:52.887][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 23:12:52.888][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:52.889][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:52.892][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 23:12:52.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 23:12:52.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:52.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:52.897][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-17 23:12:52.898][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-17 23:12:52.899][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:52.901][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:52.902][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-17 23:12:52.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-17 23:12:52.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:52.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:52.913][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 23:12:52.916][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 23:12:52.917][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:52.919][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:52.920][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:12:52.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:12:52.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:52.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:52.926][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:12:52.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:12:52.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:52.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:52.931][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:52.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:52.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:52.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:52.936][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:12:52.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:12:52.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:52.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:52.941][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:52.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:52.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:52.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:52.947][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:52.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:52.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:52.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:52.952][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:52.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:52.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:52.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:52.958][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:52.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:52.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:52.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:52.963][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:52.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:52.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:52.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:52.968][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:52.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:52.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:52.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:12:52.973][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2024-07-17 23:12:52.975][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:52.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:52.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:52.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:52.980][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:52.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:52.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:52.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:52.985][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:52.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:52.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:52.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:52.991][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:52.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:52.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:52.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:52.996][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:52.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:52.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:53.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:12:53.001][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:12:53.002][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:12:53.004][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:12:53.011][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:12:53.013][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:12:53.014][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:53.015][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:12:53.017][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2024-07-17 23:12:53.018][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-17 23:12:53.020][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15441".
biodb.TRACE[2024-07-17 23:12:53.022][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-17 23:12:53.023][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-17 23:12:53.025][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-17 23:12:53.026][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-17 23:12:53.028][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-17 23:12:53.029][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-17 23:12:53.032][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:12:53.033][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:12:53.035][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:12:53.076][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:12:53.077][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:12:53.079][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:53.080][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:12:53.082][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15441".
biodb.DEBUG[2024-07-17 23:12:53.085][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-17 23:12:53.086][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-17 23:12:53.088][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15441".
biodb.TRACE[2024-07-17 23:12:53.449][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15441).
biodb.DEBUG[2024-07-17 23:12:53.815][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-17 23:12:53.818][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a6d4f93841bd82da498852b3a0a5692d.content"
biodb.TRACE[2024-07-17 23:12:53.826][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a6d4f93841bd82da498852b3a0a5692d.request"
biodb.TRACE[2024-07-17 23:12:53.830][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml"
biodb.DEBUG[2024-07-17 23:12:53.833][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-17 23:12:53.835][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-17 23:12:53.837][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-17 23:12:53.840][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:12:53.841][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:12:53.843][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:12:53.857][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:12:53.859][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:12:53.860][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:53.861][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.TRACE[2024-07-17 23:12:53.864][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:53.865][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:53.867][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:53.868][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:53.870][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:53.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:53.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:53.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:53.876][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-17 23:12:53.877][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-17 23:12:53.879][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:53.880][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:53.881][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-17 23:12:53.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-17 23:12:53.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:53.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:53.887][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 23:12:53.889][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 23:12:53.890][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:53.891][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:53.893][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 23:12:53.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 23:12:53.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:53.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:53.898][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 23:12:53.900][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 23:12:53.901][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:53.902][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:53.904][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 23:12:53.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 23:12:53.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:53.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:53.910][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 23:12:53.911][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 23:12:53.912][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:53.914][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:53.915][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 23:12:53.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 23:12:53.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:53.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:53.921][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:12:53.922][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:12:53.924][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:53.925][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:53.927][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:12:53.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:12:53.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:53.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:53.933][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-17 23:12:53.934][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:53.943][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:53.944][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:53.947][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-17 23:12:53.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:53.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:53.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:53.954][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:12:53.956][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:12:53.958][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:53.960][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:53.963][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:12:53.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:12:53.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:53.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:53.970][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-17 23:12:53.972][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 23:12:53.974][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:53.976][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:53.979][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 23:12:53.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 23:12:53.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:53.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:53.988][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-17 23:12:53.990][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-17 23:12:53.992][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:53.993][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:53.996][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-17 23:12:53.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-17 23:12:53.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:54.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:54.001][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 23:12:54.003][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 23:12:54.004][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:54.005][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:54.007][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 23:12:54.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 23:12:54.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:54.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:54.013][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:12:54.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:12:54.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:54.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:54.019][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:12:54.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:12:54.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:54.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:54.024][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:54.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:54.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:54.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:54.030][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:12:54.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:12:54.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:54.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:54.036][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:54.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:54.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:54.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:54.045][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:54.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:54.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:54.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:54.054][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:54.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:54.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:54.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:54.060][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:54.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:54.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:54.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:54.066][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:54.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:54.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:54.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:54.074][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:54.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:54.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:54.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:12:54.082][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2024-07-17 23:12:54.083][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:54.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:54.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:54.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:54.089][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:54.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:54.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:54.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:54.095][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:54.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:54.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:54.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:12:54.106][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:12:54.108][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:12:54.109][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:12:54.130][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:12:54.132][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:12:54.134][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:54.135][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:12:54.138][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2024-07-17 23:12:54.139][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-17 23:12:54.142][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15442".
biodb.TRACE[2024-07-17 23:12:54.145][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-17 23:12:54.147][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-17 23:12:54.149][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-17 23:12:54.151][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-17 23:12:54.154][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-17 23:12:54.156][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-17 23:12:54.161][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:12:54.163][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:12:54.164][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:12:54.180][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:12:54.183][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:12:54.185][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:54.187][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:12:54.189][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15442".
biodb.DEBUG[2024-07-17 23:12:54.195][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-17 23:12:54.197][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-17 23:12:54.200][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15442".
biodb.TRACE[2024-07-17 23:12:54.565][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15442).
biodb.DEBUG[2024-07-17 23:12:54.927][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-17 23:12:54.930][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4c2c678eeeeb53d29ca6f3663ebee297.content"
biodb.TRACE[2024-07-17 23:12:54.935][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4c2c678eeeeb53d29ca6f3663ebee297.request"
biodb.TRACE[2024-07-17 23:12:54.938][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml"
biodb.DEBUG[2024-07-17 23:12:54.941][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-17 23:12:54.943][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-17 23:12:54.944][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-17 23:12:54.946][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:12:54.947][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:12:54.948][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:12:54.956][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:12:54.957][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:12:54.958][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:54.959][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:12:54.962][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:54.964][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:54.965][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:54.966][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:54.968][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:54.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:54.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:54.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:54.975][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-17 23:12:54.977][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-17 23:12:54.979][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:54.981][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:54.984][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-17 23:12:54.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-17 23:12:54.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:54.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:54.989][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 23:12:54.991][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 23:12:54.992][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:54.993][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:54.995][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 23:12:54.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 23:12:55.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:55.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:55.008][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 23:12:55.009][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 23:12:55.011][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:55.012][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:55.013][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 23:12:55.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 23:12:55.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:55.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:55.019][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 23:12:55.020][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 23:12:55.022][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:55.023][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:55.025][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 23:12:55.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 23:12:55.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:55.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:55.031][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:12:55.032][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:12:55.033][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:55.035][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:55.036][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:12:55.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:12:55.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:55.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:55.042][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-17 23:12:55.043][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:55.045][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:55.047][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:55.050][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-17 23:12:55.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:55.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:55.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:55.059][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:12:55.061][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:12:55.063][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:55.065][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:55.067][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:12:55.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:12:55.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:55.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:55.076][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-17 23:12:55.078][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 23:12:55.080][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:55.082][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:55.085][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 23:12:55.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 23:12:55.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:55.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:55.093][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-17 23:12:55.095][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-17 23:12:55.097][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:55.099][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:55.102][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-17 23:12:55.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-17 23:12:55.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:55.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:55.110][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 23:12:55.113][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 23:12:55.115][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:55.117][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:55.119][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 23:12:55.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 23:12:55.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:55.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:55.128][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:12:55.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:12:55.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:55.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:55.136][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:12:55.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:12:55.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:55.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:55.144][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:55.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:55.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:55.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:55.153][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:12:55.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:12:55.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:55.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:55.161][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:55.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:55.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:55.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:55.169][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:55.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:55.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:55.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:55.187][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:55.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:55.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:55.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:55.196][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:55.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:55.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:55.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:55.205][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:55.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:55.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:55.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:55.212][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:55.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:55.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:55.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:12:55.221][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2024-07-17 23:12:55.223][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:55.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:55.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:55.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:55.231][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:55.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:55.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:55.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:55.239][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:55.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:55.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:55.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:12:55.248][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:12:55.249][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:12:55.251][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:12:55.266][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:12:55.267][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:12:55.269][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:55.270][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:12:55.271][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2024-07-17 23:12:55.272][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-17 23:12:55.274][cch$loadFileContent] Trying to load 1 files from cache: [1]: "57310".
biodb.TRACE[2024-07-17 23:12:55.276][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-17 23:12:55.277][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-17 23:12:55.279][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-17 23:12:55.280][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-17 23:12:55.282][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-17 23:12:55.283][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-17 23:12:55.286][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:12:55.287][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:12:55.288][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:12:55.301][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:12:55.302][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:12:55.303][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:55.304][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:12:55.306][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=57310".
biodb.DEBUG[2024-07-17 23:12:55.309][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-17 23:12:55.311][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-17 23:12:55.312][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=57310".
biodb.TRACE[2024-07-17 23:12:55.684][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=57310).
biodb.DEBUG[2024-07-17 23:12:56.049][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-17 23:12:56.053][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e616043f98d9256021d0f5715e02d37b.content"
biodb.TRACE[2024-07-17 23:12:56.057][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e616043f98d9256021d0f5715e02d37b.request"
biodb.TRACE[2024-07-17 23:12:56.062][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml"
biodb.DEBUG[2024-07-17 23:12:56.065][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-17 23:12:56.067][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-17 23:12:56.069][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-17 23:12:56.071][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:12:56.072][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:12:56.073][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:12:56.102][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:12:56.103][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:12:56.105][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:56.106][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:12:56.109][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:56.111][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:56.112][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:56.113][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:56.115][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:56.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:56.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:56.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:56.120][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-17 23:12:56.121][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-17 23:12:56.123][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:56.125][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:56.127][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-17 23:12:56.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-17 23:12:56.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:56.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:56.136][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 23:12:56.138][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 23:12:56.140][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:56.142][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:56.144][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 23:12:56.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 23:12:56.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:56.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:56.153][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 23:12:56.155][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 23:12:56.157][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:56.159][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:56.160][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 23:12:56.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 23:12:56.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:56.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:56.166][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 23:12:56.167][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 23:12:56.168][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:56.169][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:56.171][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 23:12:56.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 23:12:56.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:56.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:56.176][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:12:56.177][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:12:56.179][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:56.180][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:56.181][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-17 23:12:56.183][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:56.184][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:56.185][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:56.187][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-17 23:12:56.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:56.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:56.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:56.192][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:12:56.193][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:12:56.194][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:56.196][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:56.197][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:12:56.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:12:56.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:56.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:56.202][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-17 23:12:56.204][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 23:12:56.205][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:56.206][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:56.208][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 23:12:56.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 23:12:56.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:56.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:56.213][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-17 23:12:56.214][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-17 23:12:56.215][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:56.217][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:56.218][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-17 23:12:56.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-17 23:12:56.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:56.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:56.223][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 23:12:56.225][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 23:12:56.226][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:56.227][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:56.229][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 23:12:56.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 23:12:56.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:56.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:56.240][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:12:56.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:12:56.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:56.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:56.245][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:12:56.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:12:56.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:56.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:56.250][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:56.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:56.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:56.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:56.255][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:12:56.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:12:56.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:56.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:56.260][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:56.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:56.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:56.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:56.266][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:56.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:56.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:56.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:56.270][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:56.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:56.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:56.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:56.276][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:56.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:56.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:56.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:56.281][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:56.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:56.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:56.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:56.286][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:56.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:56.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:56.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:12:56.291][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2024-07-17 23:12:56.292][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:56.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:56.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:56.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:56.297][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:56.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:56.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:56.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:56.302][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:56.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:56.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:56.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:12:56.307][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:12:56.308][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:12:56.310][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:12:56.329][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:12:56.330][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:12:56.331][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:56.333][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:12:56.334][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2024-07-17 23:12:56.336][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-17 23:12:56.339][cch$loadFileContent] Trying to load 1 files from cache: [1]: "66216".
biodb.TRACE[2024-07-17 23:12:56.341][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-17 23:12:56.343][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-17 23:12:56.344][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-17 23:12:56.346][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-17 23:12:56.348][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-17 23:12:56.349][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-17 23:12:56.352][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:12:56.354][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:12:56.355][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:12:56.362][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:12:56.364][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:12:56.365][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:56.366][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:12:56.368][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66216".
biodb.DEBUG[2024-07-17 23:12:56.377][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-17 23:12:56.379][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-17 23:12:56.381][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66216".
biodb.TRACE[2024-07-17 23:12:56.742][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66216).
biodb.DEBUG[2024-07-17 23:12:57.111][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-17 23:12:57.114][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a59039263bdeb010b063b31b1dcdd109.content"
biodb.TRACE[2024-07-17 23:12:57.119][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a59039263bdeb010b063b31b1dcdd109.request"
biodb.TRACE[2024-07-17 23:12:57.123][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml"
biodb.DEBUG[2024-07-17 23:12:57.126][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-17 23:12:57.127][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-17 23:12:57.129][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-17 23:12:57.131][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:12:57.132][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:12:57.133][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:12:57.158][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:12:57.159][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:12:57.161][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:57.162][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.TRACE[2024-07-17 23:12:57.164][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:57.166][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:57.167][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:57.168][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:57.170][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:57.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:57.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:57.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:57.175][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-17 23:12:57.176][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-17 23:12:57.177][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:57.179][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:57.180][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-17 23:12:57.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-17 23:12:57.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:57.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:57.186][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 23:12:57.187][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 23:12:57.188][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:57.189][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:57.191][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 23:12:57.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 23:12:57.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:57.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:57.196][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 23:12:57.198][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 23:12:57.199][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:57.200][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:57.202][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 23:12:57.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 23:12:57.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:57.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:57.207][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 23:12:57.209][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 23:12:57.210][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:57.211][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:57.213][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 23:12:57.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 23:12:57.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:57.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:57.218][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:12:57.220][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:12:57.221][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:57.222][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:57.224][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-17 23:12:57.225][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:57.226][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:57.228][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:57.229][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-17 23:12:57.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:57.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:57.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:57.235][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:12:57.236][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:12:57.238][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:57.239][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:57.241][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:12:57.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:12:57.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:57.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:57.254][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-17 23:12:57.255][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 23:12:57.256][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:57.258][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:57.260][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 23:12:57.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 23:12:57.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:57.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:57.265][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-17 23:12:57.266][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-17 23:12:57.268][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:57.269][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:57.271][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-17 23:12:57.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-17 23:12:57.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:57.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:57.276][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 23:12:57.278][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 23:12:57.279][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:57.280][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:57.282][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 23:12:57.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 23:12:57.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:57.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:57.287][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:12:57.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:12:57.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:57.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:57.293][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:12:57.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:12:57.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:57.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:57.299][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:57.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:57.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:57.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:57.304][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:12:57.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:12:57.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:57.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:57.309][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:57.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:57.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:57.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:57.314][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:57.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:57.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:57.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:57.319][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:57.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:57.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:57.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:57.324][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:57.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:57.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:57.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:57.330][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:57.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:57.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:57.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:57.335][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:57.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:57.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:57.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:12:57.340][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2024-07-17 23:12:57.342][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:57.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:57.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:57.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:57.347][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:57.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:57.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:57.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:57.352][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:57.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:57.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:57.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:12:57.357][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:12:57.358][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:12:57.359][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:12:57.366][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:12:57.373][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:12:57.375][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:57.376][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:12:57.378][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2024-07-17 23:12:57.379][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-17 23:12:57.381][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70860".
biodb.TRACE[2024-07-17 23:12:57.383][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-17 23:12:57.384][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-17 23:12:57.386][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-17 23:12:57.387][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-17 23:12:57.388][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-17 23:12:57.390][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-17 23:12:57.393][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:12:57.394][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:12:57.395][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:12:57.406][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:12:57.407][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:12:57.409][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:57.410][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:12:57.411][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70860".
biodb.DEBUG[2024-07-17 23:12:57.415][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-17 23:12:57.416][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-17 23:12:57.417][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70860".
biodb.TRACE[2024-07-17 23:12:57.778][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70860).
biodb.DEBUG[2024-07-17 23:12:58.143][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-17 23:12:58.147][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/02f38adb5262f39c1de7b27972a97d3a.content"
biodb.TRACE[2024-07-17 23:12:58.154][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/02f38adb5262f39c1de7b27972a97d3a.request"
biodb.TRACE[2024-07-17 23:12:58.160][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml"
biodb.DEBUG[2024-07-17 23:12:58.164][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-17 23:12:58.167][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-17 23:12:58.169][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-17 23:12:58.172][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:12:58.174][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:12:58.176][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:12:58.197][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:12:58.198][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:12:58.200][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:58.202][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:12:58.205][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:58.206][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:58.208][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:58.209][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:58.210][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:58.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:58.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:58.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:58.216][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-17 23:12:58.217][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-17 23:12:58.218][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:58.219][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:58.221][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-17 23:12:58.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-17 23:12:58.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:58.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:58.226][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 23:12:58.228][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 23:12:58.229][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:58.230][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:58.232][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 23:12:58.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 23:12:58.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:58.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:58.237][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 23:12:58.238][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 23:12:58.239][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:58.241][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:58.242][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 23:12:58.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 23:12:58.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:58.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:58.413][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 23:12:58.414][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 23:12:58.416][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:58.417][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:58.418][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 23:12:58.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 23:12:58.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:58.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:58.423][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:12:58.425][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:12:58.426][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:58.427][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:58.429][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-17 23:12:58.430][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:58.431][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:58.432][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:58.434][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-17 23:12:58.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:58.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:58.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:58.439][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:12:58.440][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:12:58.442][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:58.443][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:58.444][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:12:58.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:12:58.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:58.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:58.449][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-17 23:12:58.451][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 23:12:58.452][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:58.453][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:58.455][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 23:12:58.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 23:12:58.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:58.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:58.460][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-17 23:12:58.461][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-17 23:12:58.463][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:58.464][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:58.465][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-17 23:12:58.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-17 23:12:58.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:58.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:58.470][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 23:12:58.472][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 23:12:58.473][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:58.474][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:58.475][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 23:12:58.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 23:12:58.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:58.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:58.481][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:12:58.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:12:58.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:58.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:58.486][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:12:58.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:12:58.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:58.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:58.492][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:58.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:58.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:58.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:58.497][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:12:58.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:12:58.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:58.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:58.503][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:58.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:58.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:58.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:58.508][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:58.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:58.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:58.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:58.513][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:58.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:58.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:58.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:58.518][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:58.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:58.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:58.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:58.523][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:58.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:58.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:58.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:58.528][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:58.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:58.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:58.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:12:58.533][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2024-07-17 23:12:58.535][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:58.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:58.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:58.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:58.540][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:58.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:58.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:58.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:58.545][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:58.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:58.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:58.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:12:58.550][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:12:58.551][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:12:58.553][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:12:58.565][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:12:58.567][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:12:58.569][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:58.570][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:12:58.571][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2024-07-17 23:12:58.573][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-17 23:12:58.575][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70861".
biodb.TRACE[2024-07-17 23:12:58.577][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-17 23:12:58.579][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-17 23:12:58.581][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-17 23:12:58.582][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-17 23:12:58.583][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-17 23:12:58.585][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-17 23:12:58.588][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:12:58.589][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:12:58.591][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:12:58.606][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:12:58.608][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:12:58.610][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:58.612][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:12:58.615][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70861".
biodb.DEBUG[2024-07-17 23:12:58.621][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-17 23:12:58.623][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-17 23:12:58.626][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70861".
biodb.TRACE[2024-07-17 23:12:59.010][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70861).
biodb.DEBUG[2024-07-17 23:12:59.374][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-17 23:12:59.377][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2469ce985de4364ded27031736786fb4.content"
biodb.TRACE[2024-07-17 23:12:59.384][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2469ce985de4364ded27031736786fb4.request"
biodb.TRACE[2024-07-17 23:12:59.389][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml"
biodb.DEBUG[2024-07-17 23:12:59.393][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-17 23:12:59.396][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-17 23:12:59.399][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-17 23:12:59.403][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:12:59.405][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:12:59.408][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:12:59.440][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:12:59.442][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:12:59.443][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:59.445][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:12:59.450][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:59.452][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:59.455][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:59.457][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:59.460][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:59.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:59.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:59.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:59.469][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-17 23:12:59.471][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-17 23:12:59.474][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:59.476][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:59.478][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-17 23:12:59.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-17 23:12:59.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:59.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:59.486][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 23:12:59.488][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 23:12:59.489][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:59.491][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:59.492][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 23:12:59.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 23:12:59.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:59.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:59.499][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 23:12:59.500][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 23:12:59.502][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:59.503][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:59.505][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 23:12:59.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 23:12:59.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:59.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:59.511][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 23:12:59.512][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 23:12:59.513][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:59.515][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:59.518][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 23:12:59.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 23:12:59.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:59.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:59.528][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:12:59.530][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:12:59.532][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:59.534][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:59.537][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-17 23:12:59.539][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:59.541][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:59.543][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:59.546][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-17 23:12:59.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:59.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:59.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:59.552][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:12:59.554][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:12:59.555][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:59.557][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:59.558][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:12:59.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:12:59.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:59.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:59.564][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-17 23:12:59.566][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 23:12:59.567][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:59.568][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:59.570][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 23:12:59.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 23:12:59.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:59.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:59.576][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-17 23:12:59.578][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-17 23:12:59.579][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:59.581][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:59.582][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-17 23:12:59.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-17 23:12:59.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:59.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:59.589][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 23:12:59.590][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 23:12:59.592][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:59.593][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:59.596][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 23:12:59.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 23:12:59.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:59.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:59.605][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:12:59.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:12:59.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:59.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:59.614][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:12:59.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:12:59.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:59.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:59.623][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:59.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:59.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:59.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:59.631][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:12:59.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:12:59.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:59.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:59.637][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:59.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:59.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:59.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:59.643][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:59.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:59.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:59.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:59.649][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:59.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:59.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:59.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:59.655][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:59.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:59.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:59.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:59.661][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:59.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:59.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:59.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:59.667][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:12:59.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:12:59.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:59.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:12:59.672][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2024-07-17 23:12:59.674][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:59.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:59.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:59.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:59.680][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:59.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:59.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:59.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:12:59.686][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:59.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:12:59.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:12:59.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:12:59.692][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:12:59.693][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:12:59.694][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:12:59.709][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:12:59.710][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:12:59.712][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:59.713][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:12:59.715][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2024-07-17 23:12:59.716][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-17 23:12:59.718][cch$loadFileContent] Trying to load 1 files from cache: [1]: "78662".
biodb.TRACE[2024-07-17 23:12:59.720][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-17 23:12:59.722][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-17 23:12:59.724][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-17 23:12:59.725][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-17 23:12:59.727][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-17 23:12:59.728][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-17 23:12:59.732][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:12:59.733][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:12:59.735][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:12:59.744][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:12:59.745][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:12:59.747][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:12:59.748][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:12:59.750][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=78662".
biodb.DEBUG[2024-07-17 23:12:59.754][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-17 23:12:59.755][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-17 23:12:59.758][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=78662".
biodb.TRACE[2024-07-17 23:13:00.126][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=78662).
biodb.DEBUG[2024-07-17 23:13:00.505][scheduler$sendRequest] Saving content of request to cache.
biodb.INFO [2024-07-17 23:13:00.510][self$getFolderPath] Create cache folder "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649" for "chebi-0c5076ac2a43d16dbce503a44b09f649".
biodb.TRACE[2024-07-17 23:13:00.513][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2a2164b6127ca54c00efe5984f5864a.content"
biodb.TRACE[2024-07-17 23:13:00.518][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2a2164b6127ca54c00efe5984f5864a.request"
biodb.TRACE[2024-07-17 23:13:00.522][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml"
biodb.DEBUG[2024-07-17 23:13:00.525][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-17 23:13:00.527][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-17 23:13:00.528][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-17 23:13:00.530][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:00.532][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:00.533][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:00.541][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:00.543][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:00.544][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:00.545][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:00.549][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:00.550][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:00.551][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:00.553][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:00.555][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:00.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:00.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:00.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:00.560][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-17 23:13:00.562][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-17 23:13:00.563][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:00.564][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:00.566][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-17 23:13:00.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-17 23:13:00.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:00.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:00.573][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 23:13:00.575][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 23:13:00.577][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:00.578][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:00.581][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 23:13:00.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 23:13:00.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:00.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:00.588][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 23:13:00.590][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 23:13:00.592][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:00.593][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:00.595][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 23:13:00.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 23:13:00.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:00.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:00.602][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 23:13:00.603][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 23:13:00.604][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:00.606][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:00.607][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 23:13:00.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 23:13:00.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:00.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:00.612][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:13:00.614][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:13:00.615][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:00.616][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:00.618][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-17 23:13:00.619][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:00.620][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:00.621][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:00.623][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-17 23:13:00.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:00.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:00.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:00.628][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:00.629][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:00.631][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:00.632][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:00.633][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:00.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:00.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:00.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:00.639][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-17 23:13:00.640][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 23:13:00.642][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:00.643][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:00.645][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 23:13:00.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 23:13:00.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:00.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:00.650][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-17 23:13:00.652][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-17 23:13:00.653][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:00.654][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:00.656][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-17 23:13:00.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-17 23:13:00.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:00.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:00.661][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 23:13:00.662][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 23:13:00.663][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:00.665][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:00.666][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 23:13:00.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 23:13:00.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:00.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:00.672][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:00.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:00.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:00.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:00.677][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:00.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:00.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:00.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:00.682][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:00.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:00.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:00.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:00.687][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:00.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:00.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:00.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:00.692][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:00.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:00.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:00.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:00.697][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:00.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:00.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:00.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:00.702][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:00.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:00.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:00.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:00.707][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:00.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:00.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:00.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:00.712][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:00.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:00.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:00.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:00.717][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:00.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:00.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:00.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:00.722][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2024-07-17 23:13:00.724][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:00.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:00.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:00.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:00.729][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:00.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:00.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:00.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:00.734][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:00.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:00.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:00.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:00.739][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:00.740][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:00.741][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:00.758][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:00.759][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:00.761][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:00.762][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:00.763][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2024-07-17 23:13:00.764][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-17 23:13:00.766][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85084".
biodb.TRACE[2024-07-17 23:13:00.768][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-17 23:13:00.769][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-17 23:13:00.771][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-17 23:13:00.772][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-17 23:13:00.773][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-17 23:13:00.775][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-17 23:13:00.777][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:00.779][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:00.780][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:00.791][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:00.793][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:00.794][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:00.795][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:00.797][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85084".
biodb.DEBUG[2024-07-17 23:13:00.800][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-17 23:13:00.801][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-17 23:13:00.803][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85084".
biodb.TRACE[2024-07-17 23:13:01.162][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85084).
biodb.DEBUG[2024-07-17 23:13:01.521][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-17 23:13:01.524][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62216dc29cd0685dbac0a61545bda088.content"
biodb.TRACE[2024-07-17 23:13:01.528][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62216dc29cd0685dbac0a61545bda088.request"
biodb.TRACE[2024-07-17 23:13:01.532][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml"
biodb.DEBUG[2024-07-17 23:13:01.535][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-17 23:13:01.537][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-17 23:13:01.539][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-17 23:13:01.542][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:01.544][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:01.546][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:01.560][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:01.562][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:01.563][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:01.564][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:01.567][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:01.568][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:01.569][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:01.570][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:01.572][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:01.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:01.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:01.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:01.577][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-17 23:13:01.579][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-17 23:13:01.580][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:01.581][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:01.583][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-17 23:13:01.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-17 23:13:01.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:01.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:01.588][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 23:13:01.589][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 23:13:01.590][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:01.592][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:01.593][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 23:13:01.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 23:13:01.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:01.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:01.598][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 23:13:01.600][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 23:13:01.601][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:01.602][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:01.604][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 23:13:01.605][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 23:13:01.606][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:01.608][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:01.609][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:13:01.610][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:13:01.612][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:01.613][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:01.614][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-17 23:13:01.616][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:01.617][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:01.618][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:01.620][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-17 23:13:01.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:01.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:01.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:01.625][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:01.626][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:01.627][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:01.629][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:01.630][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:01.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:01.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:01.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:01.635][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-17 23:13:01.637][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 23:13:01.638][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:01.639][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:01.641][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 23:13:01.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 23:13:01.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:01.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:01.646][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-17 23:13:01.647][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-17 23:13:01.649][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:01.650][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:01.652][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-17 23:13:01.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-17 23:13:01.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:01.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:01.657][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 23:13:01.659][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 23:13:01.660][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:01.661][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:01.663][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:01.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:01.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:01.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:01.668][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:01.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:01.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:01.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:01.673][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:01.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:01.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:01.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:01.678][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:01.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:01.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:01.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:01.683][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:01.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:01.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:01.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:01.688][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:01.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:01.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:01.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:01.693][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:01.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:01.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:01.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:01.699][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:01.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:01.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:01.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:01.704][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:01.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:01.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:01.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:01.709][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:01.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:01.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:01.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:01.715][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2024-07-17 23:13:01.716][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:01.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:01.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:01.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:01.721][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:01.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:01.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:01.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:01.733][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:01.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:01.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:01.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:01.739][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:01.740][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:01.741][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:01.813][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:01.815][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:01.816][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:01.817][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[2024-07-17 23:13:01.818][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2024-07-17 23:13:01.820][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-17 23:13:01.822][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85086".
biodb.TRACE[2024-07-17 23:13:01.823][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-17 23:13:01.825][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-17 23:13:01.826][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-17 23:13:01.827][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-17 23:13:01.829][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-17 23:13:01.830][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-17 23:13:01.833][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:01.834][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:01.835][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:01.842][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:01.843][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:01.844][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:01.845][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[2024-07-17 23:13:01.847][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85086".
biodb.DEBUG[2024-07-17 23:13:01.850][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-17 23:13:01.851][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-17 23:13:01.853][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85086".
biodb.TRACE[2024-07-17 23:13:02.222][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85086).
biodb.DEBUG[2024-07-17 23:13:02.586][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-17 23:13:02.589][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/cf3472363c4a7effe355d93315025f8b.content"
biodb.TRACE[2024-07-17 23:13:02.594][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/cf3472363c4a7effe355d93315025f8b.request"
biodb.TRACE[2024-07-17 23:13:02.599][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml"
biodb.DEBUG[2024-07-17 23:13:02.602][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-17 23:13:02.604][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-17 23:13:02.606][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-17 23:13:02.609][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:02.610][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:02.612][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:02.623][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:02.624][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:02.626][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:02.627][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:02.629][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:02.631][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:02.632][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:02.633][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:02.635][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:02.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:02.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:02.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:02.640][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-17 23:13:02.641][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-17 23:13:02.642][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:02.644][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:02.645][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-17 23:13:02.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-17 23:13:02.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:02.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:02.650][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 23:13:02.651][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 23:13:02.653][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:02.654][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:02.655][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 23:13:02.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 23:13:02.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:02.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:02.660][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 23:13:02.662][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 23:13:02.663][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:02.664][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:02.665][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 23:13:02.667][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 23:13:02.668][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:02.669][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:02.671][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:13:02.672][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:13:02.673][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:02.674][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:02.676][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-17 23:13:02.677][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:02.678][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:02.680][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:02.681][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-17 23:13:02.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:02.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:02.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:02.686][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:02.688][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:02.689][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:02.690][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:02.692][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:02.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:02.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:02.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:02.697][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-17 23:13:02.698][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 23:13:02.699][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:02.700][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:02.702][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 23:13:02.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 23:13:02.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:02.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:02.707][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-17 23:13:02.709][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-17 23:13:02.710][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:02.711][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:02.713][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-17 23:13:02.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-17 23:13:02.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:02.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:02.718][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 23:13:02.719][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 23:13:02.720][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:02.722][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:02.723][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:02.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:02.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:02.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:02.728][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:02.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:02.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:02.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:02.733][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:02.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:02.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:02.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:02.738][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:02.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:02.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:02.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:02.743][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:02.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:02.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:02.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:02.748][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:02.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:02.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:02.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:02.754][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:02.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:02.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:02.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:02.759][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:02.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:02.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:02.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:02.764][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:02.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:02.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:02.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:02.769][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:02.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:02.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:02.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:02.774][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2024-07-17 23:13:02.776][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:02.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:02.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:02.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:02.781][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:02.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:02.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:02.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:02.786][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:02.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:02.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:02.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:02.791][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:02.792][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:02.793][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:02.808][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:02.809][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:02.811][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:02.812][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:02.813][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2024-07-17 23:13:02.814][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-17 23:13:02.816][cch$loadFileContent] Trying to load 1 files from cache: [1]: "88123".
biodb.TRACE[2024-07-17 23:13:02.818][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-17 23:13:02.820][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-17 23:13:02.821][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-17 23:13:02.822][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-17 23:13:02.824][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-17 23:13:02.825][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-17 23:13:02.828][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:02.829][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:02.831][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:02.846][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:02.847][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:02.848][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:02.849][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:02.851][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=88123".
biodb.DEBUG[2024-07-17 23:13:02.854][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-17 23:13:02.855][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-17 23:13:02.857][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=88123".
biodb.TRACE[2024-07-17 23:13:03.230][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=88123).
biodb.DEBUG[2024-07-17 23:13:03.600][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-17 23:13:03.603][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8e37f256f660b350650d4ca45d7cd291.content"
biodb.TRACE[2024-07-17 23:13:03.608][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8e37f256f660b350650d4ca45d7cd291.request"
biodb.TRACE[2024-07-17 23:13:03.612][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml"
biodb.DEBUG[2024-07-17 23:13:03.616][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-17 23:13:03.618][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-17 23:13:03.621][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-17 23:13:03.624][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:03.626][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:03.628][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:03.654][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:03.656][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:03.657][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:03.658][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:03.662][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:03.663][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:03.664][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:03.666][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:03.667][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:03.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:03.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:03.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:03.673][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-17 23:13:03.674][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-17 23:13:03.675][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:03.676][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:03.678][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-17 23:13:03.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-17 23:13:03.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:03.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:03.683][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 23:13:03.685][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 23:13:03.686][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:03.687][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:03.689][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 23:13:03.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 23:13:03.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:03.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:03.694][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 23:13:03.696][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 23:13:03.697][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:03.698][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:03.700][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 23:13:03.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 23:13:03.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:03.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:03.705][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 23:13:03.707][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 23:13:03.708][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:03.709][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:03.711][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 23:13:03.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 23:13:03.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:03.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:03.716][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:13:03.718][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:13:03.719][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:03.720][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:03.722][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-17 23:13:03.723][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:03.725][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:03.726][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:03.728][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-17 23:13:03.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:03.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:03.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:03.733][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:03.734][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:03.736][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:03.737][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:03.739][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:03.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:03.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:03.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:03.744][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-17 23:13:03.745][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 23:13:03.747][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:03.748][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:03.750][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 23:13:03.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 23:13:03.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:03.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:03.755][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-17 23:13:03.757][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-17 23:13:03.758][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:03.759][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:03.761][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-17 23:13:03.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-17 23:13:03.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:03.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:03.766][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 23:13:03.768][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 23:13:03.769][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:03.770][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:03.772][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 23:13:03.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 23:13:03.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:03.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:03.778][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:03.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:03.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:03.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:03.783][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:03.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:03.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:03.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:03.803][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:03.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:03.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:03.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:03.811][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:03.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:03.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:03.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:03.819][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:03.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:03.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:03.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:03.827][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:03.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:03.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:03.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:03.835][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:03.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:03.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:03.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:03.843][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:03.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:03.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:03.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:03.851][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:03.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:03.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:03.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:03.859][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:03.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:03.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:03.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:03.867][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2024-07-17 23:13:03.869][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:03.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:03.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:03.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:03.877][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:03.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:03.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:03.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:03.882][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:03.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:03.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:03.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:03.888][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:03.889][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:03.890][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:03.900][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:03.901][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:03.903][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:03.904][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.DEBUG[2024-07-17 23:13:03.905][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2024-07-17 23:13:03.907][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-17 23:13:03.909][cch$loadFileContent] Trying to load 1 files from cache: [1]: "134117".
biodb.INFO [2024-07-17 23:13:03.910][self$getFolderPath] Create cache folder "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649" for "chebi-0c5076ac2a43d16dbce503a44b09f649".
biodb.TRACE[2024-07-17 23:13:03.912][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-17 23:13:03.914][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-17 23:13:03.915][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-17 23:13:03.917][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-17 23:13:03.918][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-17 23:13:03.919][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-17 23:13:03.922][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:03.923][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:03.924][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:03.936][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:03.938][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:03.939][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:03.940][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:03.942][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=134117".
biodb.DEBUG[2024-07-17 23:13:03.945][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-17 23:13:03.946][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-17 23:13:03.948][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=134117".
biodb.TRACE[2024-07-17 23:13:04.311][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=134117).
biodb.DEBUG[2024-07-17 23:13:04.671][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-17 23:13:04.674][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8f998f0023bf19b8745b926f0b2992d7.content"
biodb.TRACE[2024-07-17 23:13:04.679][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8f998f0023bf19b8745b926f0b2992d7.request"
biodb.TRACE[2024-07-17 23:13:04.683][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml"
biodb.DEBUG[2024-07-17 23:13:04.686][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-17 23:13:04.688][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-17 23:13:04.689][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-17 23:13:04.691][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:04.692][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:04.693][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:04.847][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:04.849][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:04.850][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:04.852][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.TRACE[2024-07-17 23:13:04.854][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:04.856][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:04.857][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:04.858][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:04.860][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:04.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:04.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:04.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:04.866][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-17 23:13:04.868][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-17 23:13:04.869][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:04.871][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:04.874][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-17 23:13:04.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-17 23:13:04.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:04.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:04.881][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 23:13:04.883][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 23:13:04.885][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:04.887][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:04.889][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 23:13:04.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 23:13:04.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:04.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:04.897][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 23:13:04.899][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 23:13:04.901][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:04.903][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:04.905][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 23:13:04.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 23:13:04.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:04.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:04.911][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 23:13:04.912][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 23:13:04.914][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:04.915][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:04.916][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 23:13:04.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 23:13:04.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:04.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:04.922][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:13:04.923][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:13:04.924][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:04.926][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:04.927][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-17 23:13:04.929][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:04.930][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:04.931][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:04.933][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-17 23:13:04.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:04.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:04.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:04.938][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:04.940][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:04.941][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:04.943][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:04.945][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:04.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:04.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:04.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:04.954][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-17 23:13:04.956][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 23:13:04.958][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:04.960][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:04.963][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 23:13:04.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 23:13:04.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:04.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:04.972][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-17 23:13:04.974][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-17 23:13:04.976][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:04.978][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:04.981][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-17 23:13:04.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-17 23:13:04.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:04.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:04.990][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 23:13:04.992][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 23:13:04.994][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:04.996][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:04.999][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 23:13:05.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 23:13:05.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:05.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:05.006][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:05.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:05.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:05.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:05.011][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:05.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:05.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:05.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:05.017][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:05.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:05.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:05.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:05.022][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:05.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:05.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:05.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:05.028][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:05.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:05.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:05.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:05.033][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:05.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:05.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:05.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:05.038][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:05.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:05.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:05.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:05.043][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:05.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:05.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:05.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:05.049][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:05.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:05.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:05.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:05.054][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:05.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:05.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:05.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:05.059][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2024-07-17 23:13:05.061][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:05.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:05.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:05.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:05.066][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:05.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:05.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:05.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:05.071][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:05.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:05.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:05.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:05.076][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:05.077][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:05.079][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:05.086][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:05.088][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:05.089][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:05.090][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:05.091][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2024-07-17 23:13:05.093][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-17 23:13:05.095][cch$loadFileContent] Trying to load 1 files from cache: [1]: "138307".
biodb.TRACE[2024-07-17 23:13:05.096][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-17 23:13:05.098][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-17 23:13:05.099][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-17 23:13:05.101][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-17 23:13:05.102][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-17 23:13:05.103][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-17 23:13:05.106][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:05.107][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:05.109][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:05.128][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:05.130][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:05.131][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:05.132][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:05.134][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=138307".
biodb.DEBUG[2024-07-17 23:13:05.138][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-17 23:13:05.139][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-17 23:13:05.141][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=138307".
biodb.TRACE[2024-07-17 23:13:05.504][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=138307).
biodb.DEBUG[2024-07-17 23:13:05.871][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-17 23:13:05.875][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a2610bdf009c6327ccf7d519fff16ded.content"
biodb.TRACE[2024-07-17 23:13:05.882][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a2610bdf009c6327ccf7d519fff16ded.request"
biodb.TRACE[2024-07-17 23:13:05.888][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml"
biodb.DEBUG[2024-07-17 23:13:05.892][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-17 23:13:05.894][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-17 23:13:05.897][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-17 23:13:05.900][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:05.902][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:05.904][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:05.916][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:05.918][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:05.920][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:05.922][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:05.926][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:05.929][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:05.931][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:05.933][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:05.935][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:05.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:05.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:05.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:05.944][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-17 23:13:05.946][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-17 23:13:05.948][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:05.950][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:05.953][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-17 23:13:05.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-17 23:13:05.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:05.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:05.959][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 23:13:05.961][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 23:13:05.963][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:05.964][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:05.966][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 23:13:05.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 23:13:05.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:05.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:05.972][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 23:13:05.973][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 23:13:05.974][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:05.976][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:05.977][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 23:13:05.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 23:13:05.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:05.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:05.983][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 23:13:05.984][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 23:13:05.991][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:05.996][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:05.997][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 23:13:05.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 23:13:06.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:06.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:06.003][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:13:06.004][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:13:06.005][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:06.007][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:06.008][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-17 23:13:06.010][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:06.011][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:06.012][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:06.014][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-17 23:13:06.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:06.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:06.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:06.019][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:06.020][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:06.022][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:06.024][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:06.027][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:06.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:06.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:06.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:06.033][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-17 23:13:06.034][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 23:13:06.036][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:06.037][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:06.039][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 23:13:06.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 23:13:06.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:06.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:06.045][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-17 23:13:06.047][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-17 23:13:06.048][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:06.050][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:06.051][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-17 23:13:06.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-17 23:13:06.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:06.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:06.057][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 23:13:06.058][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 23:13:06.059][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:06.061][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:06.062][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 23:13:06.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 23:13:06.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:06.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:06.068][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:06.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:06.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:06.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:06.075][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:06.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:06.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:06.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:06.081][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:06.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:06.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:06.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:06.087][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:06.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:06.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:06.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:06.093][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:06.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:06.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:06.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:06.102][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:06.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:06.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:06.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:06.111][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:06.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:06.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:06.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:06.119][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:06.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:06.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:06.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:06.124][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:06.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:06.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:06.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:06.129][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:06.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:06.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:06.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:06.134][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2024-07-17 23:13:06.136][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:06.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:06.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:06.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:06.141][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:06.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:06.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:06.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:06.147][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:06.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:06.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:06.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:06.155][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:06.157][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:06.159][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:06.171][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:06.174][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:06.176][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:06.177][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:06.179][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2024-07-17 23:13:06.180][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-17 23:13:06.182][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176803".
biodb.TRACE[2024-07-17 23:13:06.184][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-17 23:13:06.186][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-17 23:13:06.187][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-17 23:13:06.189][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-17 23:13:06.190][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-17 23:13:06.191][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-17 23:13:06.194][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:06.196][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:06.197][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:06.233][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:06.235][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:06.236][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:06.237][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:06.239][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176803".
biodb.DEBUG[2024-07-17 23:13:06.242][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-17 23:13:06.243][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-17 23:13:06.245][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176803".
biodb.TRACE[2024-07-17 23:13:06.606][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176803).
biodb.DEBUG[2024-07-17 23:13:06.970][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-17 23:13:06.973][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/648921bf283f148f1437569ccee0fc41.content"
biodb.TRACE[2024-07-17 23:13:06.978][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/648921bf283f148f1437569ccee0fc41.request"
biodb.TRACE[2024-07-17 23:13:06.982][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml"
biodb.DEBUG[2024-07-17 23:13:06.984][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-17 23:13:06.985][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-17 23:13:06.987][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-17 23:13:06.989][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:06.990][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:06.991][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:11.279][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:11.281][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:11.282][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:11.283][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:11.286][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:11.287][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:11.289][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:11.290][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:11.291][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:11.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:11.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:11.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:11.296][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-17 23:13:11.298][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-17 23:13:11.299][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:11.300][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:11.302][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-17 23:13:11.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-17 23:13:11.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:11.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:11.307][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 23:13:11.308][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 23:13:11.309][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:11.310][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:11.312][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 23:13:11.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 23:13:11.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:11.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:11.317][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 23:13:11.318][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 23:13:11.320][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:11.321][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:11.324][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 23:13:11.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 23:13:11.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:11.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:11.331][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 23:13:11.333][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 23:13:11.335][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:11.337][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:11.339][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 23:13:11.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 23:13:11.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:11.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:11.346][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:13:11.348][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:13:11.350][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:11.352][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:11.354][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-17 23:13:11.356][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:11.358][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:11.359][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:11.362][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-17 23:13:11.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:11.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:11.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:11.368][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:11.370][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:11.371][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:11.372][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:11.373][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:11.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:11.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:11.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:11.378][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-17 23:13:11.380][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 23:13:11.381][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:11.382][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:11.384][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 23:13:11.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 23:13:11.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:11.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:11.389][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-17 23:13:11.390][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-17 23:13:11.391][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:11.392][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:11.394][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-17 23:13:11.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-17 23:13:11.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:11.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:11.399][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 23:13:11.400][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 23:13:11.401][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:11.402][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:11.404][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 23:13:11.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 23:13:11.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:11.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:11.409][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:11.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:11.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:11.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:11.414][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:11.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:11.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:11.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:11.419][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:11.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:11.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:11.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:11.424][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:11.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:11.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:11.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:11.429][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:11.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:11.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:11.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:11.434][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:11.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:11.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:11.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:11.439][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:11.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:11.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:11.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:11.444][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:11.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:11.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:11.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:11.449][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:11.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:11.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:11.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:11.454][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:11.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:11.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:11.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:11.459][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2024-07-17 23:13:11.460][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:11.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:11.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:11.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:11.465][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:11.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:11.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:11.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:11.470][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:11.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:11.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:11.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:11.475][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:11.476][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:11.477][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:11.484][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:11.485][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:11.486][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:11.487][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:11.489][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2024-07-17 23:13:11.490][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-17 23:13:11.492][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176962".
biodb.TRACE[2024-07-17 23:13:11.494][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-17 23:13:11.495][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-17 23:13:11.496][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-17 23:13:11.498][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-17 23:13:11.499][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-17 23:13:11.500][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-17 23:13:11.503][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:11.504][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:11.505][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:11.512][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:11.513][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:11.514][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:11.515][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:11.517][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176962".
biodb.DEBUG[2024-07-17 23:13:11.520][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-17 23:13:11.521][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-17 23:13:11.523][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176962".
biodb.TRACE[2024-07-17 23:13:11.893][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176962).
biodb.DEBUG[2024-07-17 23:13:12.266][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-17 23:13:12.277][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/881a0b9df4a64ff0258c2dc68959eb26.content"
biodb.TRACE[2024-07-17 23:13:12.282][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/881a0b9df4a64ff0258c2dc68959eb26.request"
biodb.TRACE[2024-07-17 23:13:12.285][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml"
biodb.DEBUG[2024-07-17 23:13:12.288][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-17 23:13:12.289][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-17 23:13:12.291][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-17 23:13:12.293][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:12.294][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:12.295][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:12.302][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:12.303][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:12.304][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:12.305][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:12.308][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:12.309][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:12.310][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:12.312][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:12.313][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:12.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:12.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:12.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:12.318][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-17 23:13:12.319][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-17 23:13:12.321][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:12.322][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:12.323][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-17 23:13:12.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-17 23:13:12.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:12.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:12.328][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 23:13:12.330][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 23:13:12.331][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:12.332][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:12.334][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 23:13:12.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 23:13:12.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:12.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:12.339][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 23:13:12.340][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 23:13:12.341][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:12.342][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:12.344][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 23:13:12.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 23:13:12.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:12.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:12.349][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 23:13:12.350][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 23:13:12.351][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:12.352][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:12.354][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 23:13:12.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 23:13:12.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:12.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:12.359][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:13:12.360][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:13:12.361][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:12.363][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:12.364][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-17 23:13:12.366][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:12.367][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:12.368][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:12.370][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-17 23:13:12.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:12.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:12.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:12.375][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:12.376][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:12.377][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:12.378][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:12.380][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:12.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:12.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:12.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:12.385][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-17 23:13:12.386][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 23:13:12.387][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:12.388][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:12.390][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 23:13:12.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 23:13:12.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:12.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:12.395][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-17 23:13:12.396][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-17 23:13:12.397][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:12.399][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:12.400][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-17 23:13:12.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-17 23:13:12.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:12.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:12.405][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 23:13:12.407][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 23:13:12.408][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:12.409][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:12.411][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 23:13:12.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 23:13:12.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:12.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:12.416][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:12.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:12.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:12.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:12.421][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:12.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:12.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:12.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:12.426][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:12.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:12.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:12.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:12.430][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:12.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:12.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:12.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:12.435][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:12.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:12.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:12.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:12.440][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:12.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:12.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:12.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:12.445][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:12.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:12.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:12.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:12.450][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:12.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:12.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:12.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:12.455][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:12.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:12.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:12.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:12.460][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:12.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:12.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:12.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:12.465][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2024-07-17 23:13:12.466][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:12.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:12.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:12.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:12.471][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:12.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:12.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:12.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:12.476][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:12.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:12.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:12.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:12.481][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:12.482][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:12.483][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:12.766][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:12.767][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:12.768][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:12.769][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:12.771][private$loadEntries] Creating entries from ids [1]: "198655".
biodb.DEBUG[2024-07-17 23:13:12.772][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-17 23:13:12.774][cch$loadFileContent] Trying to load 1 files from cache: [1]: "198655".
biodb.TRACE[2024-07-17 23:13:12.776][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-17 23:13:12.777][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-17 23:13:12.778][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-17 23:13:12.780][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-17 23:13:12.781][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-17 23:13:12.782][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-17 23:13:12.785][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:12.786][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:12.787][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:12.794][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:12.795][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:12.797][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:12.798][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:12.799][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=198655".
biodb.DEBUG[2024-07-17 23:13:12.802][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-17 23:13:12.804][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-17 23:13:12.805][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=198655".
biodb.TRACE[2024-07-17 23:13:13.168][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=198655).
biodb.DEBUG[2024-07-17 23:13:13.532][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-17 23:13:13.536][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2e175d021d3c86c1362fa584a90fbad.content"
biodb.TRACE[2024-07-17 23:13:13.540][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2e175d021d3c86c1362fa584a90fbad.request"
biodb.TRACE[2024-07-17 23:13:13.544][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/198655.xml"
biodb.DEBUG[2024-07-17 23:13:13.546][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-17 23:13:13.548][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-17 23:13:13.549][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-17 23:13:13.551][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:13.552][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:13.553][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:13.945][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:13.946][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:13.948][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:13.949][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:13.951][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:13.953][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:13.954][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:13.955][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:13.957][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:13.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:13.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:13.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:13.962][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-17 23:13:13.964][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-17 23:13:13.966][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:13.968][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:13.970][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-17 23:13:13.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-17 23:13:13.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:13.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:13.978][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 23:13:13.980][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 23:13:13.982][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:13.984][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:13.987][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 23:13:13.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 23:13:13.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:13.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:13.995][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 23:13:13.997][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 23:13:13.999][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:14.001][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:14.004][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 23:13:14.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 23:13:14.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:14.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:14.012][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 23:13:14.014][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 23:13:14.016][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:14.018][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:14.020][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 23:13:14.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 23:13:14.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:14.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:14.028][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:13:14.030][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:13:14.032][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:14.034][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:14.036][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-17 23:13:14.039][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:14.041][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:14.042][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:14.045][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-17 23:13:14.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:14.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:14.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:14.053][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:14.055][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:14.056][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:14.057][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:14.059][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:14.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:14.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:14.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:14.064][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-17 23:13:14.066][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 23:13:14.067][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:14.068][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:14.070][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 23:13:14.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 23:13:14.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:14.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:14.075][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-17 23:13:14.076][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-17 23:13:14.077][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:14.078][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:14.080][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-17 23:13:14.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-17 23:13:14.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:14.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:14.085][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 23:13:14.086][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 23:13:14.088][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:14.089][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:14.090][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 23:13:14.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 23:13:14.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:14.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:14.096][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:14.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:14.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:14.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:14.101][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:14.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:14.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:14.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:14.106][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:14.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:14.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:14.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:14.111][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:14.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:14.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:14.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:14.116][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:14.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:14.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:14.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:14.121][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:14.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:14.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:14.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:14.126][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:14.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:14.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:14.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:14.131][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:14.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:14.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:14.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:14.136][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:14.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:14.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:14.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:14.141][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:14.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:14.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:14.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:14.154][self$createEntryFromContent] Accession numbers: 198655.
biodb.TRACE[2024-07-17 23:13:14.155][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:14.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:14.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:14.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:14.160][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:14.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:14.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:14.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:14.165][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:14.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:14.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:14.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:14.170][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:14.171][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:14.172][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:14.189][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:14.191][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:14.192][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:14.193][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:14.194][private$loadEntries] Creating entries from ids [1]: "215045".
biodb.DEBUG[2024-07-17 23:13:14.196][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-17 23:13:14.199][cch$loadFileContent] Trying to load 1 files from cache: [1]: "215045".
biodb.TRACE[2024-07-17 23:13:14.201][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-17 23:13:14.204][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-17 23:13:14.206][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-17 23:13:14.208][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-17 23:13:14.210][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-17 23:13:14.212][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-17 23:13:14.216][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:14.217][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:14.218][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:14.229][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:14.231][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:14.232][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:14.233][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:14.234][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=215045".
biodb.DEBUG[2024-07-17 23:13:14.238][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-17 23:13:14.239][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-17 23:13:14.240][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=215045".
biodb.TRACE[2024-07-17 23:13:14.620][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=215045).
biodb.DEBUG[2024-07-17 23:13:14.986][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-17 23:13:14.989][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5fb598055294db64f197c61a6e36b01a.content"
biodb.TRACE[2024-07-17 23:13:14.993][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5fb598055294db64f197c61a6e36b01a.request"
biodb.TRACE[2024-07-17 23:13:14.997][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/215045.xml"
biodb.DEBUG[2024-07-17 23:13:15.000][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-17 23:13:15.001][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-17 23:13:15.002][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-17 23:13:15.004][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:15.005][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:15.006][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:15.024][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:15.025][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:15.026][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:15.027][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:15.030][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:15.031][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:15.033][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:15.034][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:15.035][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:15.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:15.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:15.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:15.040][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-17 23:13:15.041][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-17 23:13:15.043][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:15.044][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:15.045][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-17 23:13:15.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-17 23:13:15.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:15.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:15.050][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 23:13:15.052][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 23:13:15.053][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:15.054][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:15.056][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 23:13:15.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 23:13:15.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:15.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:15.061][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 23:13:15.062][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 23:13:15.063][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:15.064][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:15.066][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 23:13:15.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 23:13:15.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:15.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:15.071][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 23:13:15.072][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 23:13:15.073][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:15.075][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:15.076][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 23:13:15.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 23:13:15.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:15.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:15.081][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:13:15.083][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:13:15.084][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:15.085][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:15.086][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-17 23:13:15.088][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:15.089][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:15.090][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:15.092][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-17 23:13:15.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:15.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:15.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:15.097][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:15.098][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:15.099][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:15.100][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:15.102][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:15.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:15.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:15.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:15.107][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-17 23:13:15.109][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 23:13:15.110][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:15.111][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:15.113][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 23:13:15.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 23:13:15.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:15.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:15.118][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-17 23:13:15.119][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-17 23:13:15.120][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:15.121][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:15.123][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-17 23:13:15.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-17 23:13:15.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:15.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:15.128][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 23:13:15.129][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 23:13:15.130][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:15.131][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:15.133][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 23:13:15.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 23:13:15.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:15.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:15.138][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:15.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:15.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:15.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:15.143][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:15.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:15.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:15.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:15.148][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:15.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:15.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:15.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:15.154][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:15.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:15.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:15.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:15.159][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:15.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:15.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:15.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:15.164][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:15.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:15.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:15.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:15.169][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:15.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:15.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:15.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:15.174][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:15.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:15.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:15.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:15.179][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:15.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:15.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:15.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:15.184][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:15.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:15.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:15.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:15.189][self$createEntryFromContent] Accession numbers: 215045.
biodb.TRACE[2024-07-17 23:13:15.190][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:15.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:15.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:15.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:15.195][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:15.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:15.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:15.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:15.200][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:15.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:15.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:15.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:15.239][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-17 23:13:15.243][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-17 23:13:15.244][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-17 23:13:15.246][private$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[2024-07-17 23:13:15.752][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[2024-07-17 23:13:16.265][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-17 23:13:16.268][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content"
biodb.TRACE[2024-07-17 23:13:16.275][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.request"
biodb.DEBUG[2024-07-17 23:13:16.281][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:16.282][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:16.283][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:16.303][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:16.304][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:16.305][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:16.306][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:16.308][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:16.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:16.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:16.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:16.313][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:16.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:16.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:16.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:16.318][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:16.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:16.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:16.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:16.323][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:16.324][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:16.326][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:17.439][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:17.440][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:17.441][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:17.442][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:17.444][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:17.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:17.449][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:17.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:17.454][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:17.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:17.459][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:17.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:17.465][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:17.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:17.470][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:17.471][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:17.472][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:17.486][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:17.489][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:17.491][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:17.493][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:17.495][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:17.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:17.503][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:17.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:17.512][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:17.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:17.520][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:17.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:17.528][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:17.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:17.536][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:17.538][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:17.540][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:17.561][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:17.562][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:17.563][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:17.564][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:17.566][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:17.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:17.579][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:17.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:17.584][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:17.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:17.589][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:17.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:17.594][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:17.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:17.599][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:17.600][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:17.601][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:17.653][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:17.655][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:17.656][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:17.657][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.TRACE[2024-07-17 23:13:17.658][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:17.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:17.663][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:17.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:17.668][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:17.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:17.673][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:17.674][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:17.675][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:17.682][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:17.683][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:17.684][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:17.686][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[2024-07-17 23:13:17.687][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:17.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:17.692][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:17.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:17.697][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:17.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:17.702][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:17.703][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:17.704][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:17.711][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:17.712][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:17.713][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:17.714][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:17.715][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:17.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:17.720][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:17.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:17.725][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:17.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:17.730][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:17.731][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:17.732][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:17.739][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:17.740][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:17.741][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:17.742][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:17.744][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:17.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:17.749][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:17.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:17.753][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:17.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:17.758][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:17.760][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:17.761][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:17.768][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:17.769][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:17.770][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:17.771][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[2024-07-17 23:13:17.773][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:17.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:17.778][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:17.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:17.782][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:17.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:17.787][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:17.788][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:17.789][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:17.797][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:17.798][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:17.799][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:17.800][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[2024-07-17 23:13:17.801][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:17.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:17.806][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:17.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:17.811][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:17.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:17.816][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:17.817][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:17.818][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:17.825][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:17.827][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:17.828][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:17.829][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[2024-07-17 23:13:17.830][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:17.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:17.835][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:17.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:17.840][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:17.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:17.845][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:17.846][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:17.847][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:17.854][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:17.855][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:17.856][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:17.858][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:17.859][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:17.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:17.864][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:17.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:17.869][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:17.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:17.874][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:17.875][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:17.876][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:17.883][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:17.884][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:17.885][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:17.886][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:17.888][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:17.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:17.893][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:17.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:17.898][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:17.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:17.903][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:17.904][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:17.905][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:17.912][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:17.913][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:17.914][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:17.915][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:17.917][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:17.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:17.922][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:17.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:17.927][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:17.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:17.932][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:17.933][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:17.934][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:17.941][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:17.942][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:17.943][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:17.944][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:17.946][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:17.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:17.951][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:17.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:17.956][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:17.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:17.961][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:17.962][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:17.963][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:17.970][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:17.971][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:17.972][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:17.973][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:17.975][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:17.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:17.980][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:17.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:17.985][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:17.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:17.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:17.990][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:17.991][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:17.992][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:17.999][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:18.000][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:18.001][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:18.003][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:18.004][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:18.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:18.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:18.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:18.009][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:18.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:18.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:18.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:18.014][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:18.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:18.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:18.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:18.019][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:18.020][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:18.021][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:18.029][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:18.030][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:18.031][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:18.032][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[2024-07-17 23:13:18.034][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:18.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:18.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:18.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:18.039][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:18.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:18.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:18.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:18.044][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:18.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:18.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:18.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:18.049][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:18.050][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:18.051][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:18.058][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:18.059][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:18.060][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:18.061][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:18.063][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:18.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:18.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:18.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:18.068][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:18.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:18.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:18.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:18.073][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:18.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:18.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:18.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:18.078][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:18.079][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:18.080][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:18.092][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:18.094][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:18.095][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:18.096][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:18.097][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:18.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:18.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:18.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:18.102][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:18.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:18.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:18.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:18.107][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:18.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:18.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:18.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:18.330][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:18.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:18.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:18.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:18.336][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:18.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:18.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:18.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:18.340][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:18.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:18.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:18.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:18.345][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:18.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:18.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:18.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:18.350][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:18.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:18.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:18.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:18.376][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[2024-07-17 23:13:18.380][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-17 23:13:18.381][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-17 23:13:18.383][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-07-17 23:13:18.756][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-07-17 23:13:19.137][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-17 23:13:19.140][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c5171beada848a87ef2ffa10427d9be3.content"
biodb.TRACE[2024-07-17 23:13:19.146][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c5171beada848a87ef2ffa10427d9be3.request"
biodb.DEBUG[2024-07-17 23:13:19.151][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-17 23:13:19.154][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-17 23:13:19.156][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-17 23:13:19.158][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-07-17 23:13:19.526][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-07-17 23:13:19.892][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-17 23:13:19.897][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/750e63ff76a843f016511fa71c89113e.content"
biodb.TRACE[2024-07-17 23:13:19.905][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/750e63ff76a843f016511fa71c89113e.request"
biodb.DEBUG[2024-07-17 23:13:19.912][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:19.914][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:19.915][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:19.925][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:19.927][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:19.928][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:19.929][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[2024-07-17 23:13:19.931][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2024-07-17 23:13:19.933][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-17 23:13:19.935][cch$loadFileContent] Trying to load 1 files from cache: [1]: "4648".
biodb.TRACE[2024-07-17 23:13:19.937][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-17 23:13:19.939][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-17 23:13:19.940][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-17 23:13:19.942][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-17 23:13:19.943][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-17 23:13:19.944][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-17 23:13:19.947][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:19.949][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:19.950][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:19.966][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:19.968][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:19.969][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:19.970][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[2024-07-17 23:13:19.972][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=4648".
biodb.DEBUG[2024-07-17 23:13:19.976][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-17 23:13:19.977][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-17 23:13:19.979][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=4648".
biodb.TRACE[2024-07-17 23:13:20.342][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=4648).
biodb.DEBUG[2024-07-17 23:13:20.706][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-17 23:13:20.709][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/844829d8afb6d338ebac906e62f6cb8e.content"
biodb.TRACE[2024-07-17 23:13:20.716][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/844829d8afb6d338ebac906e62f6cb8e.request"
biodb.TRACE[2024-07-17 23:13:20.721][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml"
biodb.DEBUG[2024-07-17 23:13:20.724][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-17 23:13:20.726][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-17 23:13:20.727][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-17 23:13:20.730][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:20.732][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:20.734][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:20.744][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:20.745][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:20.747][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:20.748][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:20.751][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:20.752][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:20.753][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:20.754][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:20.756][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:20.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:20.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:20.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:20.761][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-17 23:13:20.763][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-17 23:13:20.764][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:20.765][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:20.767][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-17 23:13:20.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-17 23:13:20.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:20.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:20.772][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 23:13:20.773][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 23:13:20.774][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:20.775][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:20.777][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 23:13:20.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 23:13:20.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:20.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:20.782][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 23:13:20.784][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 23:13:20.785][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:20.786][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:20.788][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 23:13:20.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 23:13:20.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:20.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:20.793][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 23:13:20.794][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 23:13:20.795][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:20.797][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:20.798][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 23:13:20.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 23:13:20.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:20.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:20.803][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:13:20.805][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:13:20.806][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:20.807][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:20.809][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:13:20.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:13:20.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:20.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:20.817][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-17 23:13:20.819][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:20.821][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:20.823][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:20.825][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-17 23:13:20.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:20.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:20.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:20.833][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:20.835][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:20.837][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:20.839][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:20.841][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:20.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:20.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:20.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:20.850][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-17 23:13:20.852][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 23:13:20.853][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:20.855][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:20.857][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 23:13:20.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 23:13:20.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:20.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:20.862][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-17 23:13:20.864][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-17 23:13:20.865][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:20.866][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:20.867][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-17 23:13:20.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-17 23:13:20.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:20.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:20.873][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 23:13:20.874][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 23:13:20.875][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:20.876][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:20.878][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 23:13:20.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 23:13:20.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:20.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:20.883][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:20.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:20.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:20.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:20.888][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:20.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:20.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:20.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:20.893][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:20.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:20.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:20.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:20.898][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:20.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:20.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:20.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:20.903][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:20.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:20.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:20.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:20.908][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:20.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:20.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:20.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:20.913][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:20.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:20.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:20.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:20.918][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:20.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:20.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:20.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:20.923][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:20.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:20.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:20.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:20.928][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:20.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:20.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:20.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:20.934][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2024-07-17 23:13:20.935][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:20.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:20.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:20.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:20.940][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:20.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:20.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:20.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:20.946][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:20.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:20.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:20.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:20.952][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:20.954][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:20.955][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:20.968][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:20.969][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:20.970][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:20.971][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:20.973][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:20.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:20.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:20.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:20.978][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:20.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:20.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:20.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:20.983][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:20.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:20.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:20.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:20.998][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:21.000][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:21.001][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:21.022][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:21.023][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:21.025][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:21.026][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:21.027][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2024-07-17 23:13:21.029][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-17 23:13:21.031][cch$loadFileContent] Trying to load 1 files from cache: [1]: "62447".
biodb.TRACE[2024-07-17 23:13:21.033][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-17 23:13:21.034][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-17 23:13:21.036][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-17 23:13:21.037][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-17 23:13:21.038][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-17 23:13:21.039][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-17 23:13:21.042][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:21.044][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:21.045][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:21.055][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:21.056][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:21.057][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:21.058][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:21.060][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=62447".
biodb.DEBUG[2024-07-17 23:13:21.063][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-17 23:13:21.064][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-17 23:13:21.066][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=62447".
biodb.TRACE[2024-07-17 23:13:21.426][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=62447).
biodb.DEBUG[2024-07-17 23:13:21.789][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-17 23:13:21.792][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ceadc6ac0ce91f601616e22be7c76851.content"
biodb.TRACE[2024-07-17 23:13:21.796][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ceadc6ac0ce91f601616e22be7c76851.request"
biodb.TRACE[2024-07-17 23:13:21.800][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml"
biodb.DEBUG[2024-07-17 23:13:21.803][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-17 23:13:21.804][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-17 23:13:21.806][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-17 23:13:21.807][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:21.809][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:21.810][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:21.832][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:21.833][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:21.834][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:21.836][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:21.838][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:21.840][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:21.841][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:21.842][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:21.844][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:21.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:21.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:21.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:21.849][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-17 23:13:21.850][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-17 23:13:21.851][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:21.852][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:21.854][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-17 23:13:21.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-17 23:13:21.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:21.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:21.859][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 23:13:21.860][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 23:13:21.861][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:21.862][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:21.864][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 23:13:21.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 23:13:21.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:21.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:21.869][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 23:13:21.870][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 23:13:21.871][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:21.873][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:21.874][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 23:13:21.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 23:13:21.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:21.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:21.879][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 23:13:21.881][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 23:13:21.882][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:21.883][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:21.884][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 23:13:21.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 23:13:21.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:21.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:21.890][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:13:21.891][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:13:21.892][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:21.893][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:21.895][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-17 23:13:21.896][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:21.898][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:21.899][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:21.900][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-17 23:13:21.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:21.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:21.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:21.905][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:21.907][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:21.908][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:21.909][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:21.911][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:21.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:21.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:21.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:21.916][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-17 23:13:21.917][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 23:13:21.918][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:21.919][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:21.921][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 23:13:21.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 23:13:21.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:21.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:21.926][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-17 23:13:21.928][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-17 23:13:21.929][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:21.930][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:21.931][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-17 23:13:21.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-17 23:13:21.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:21.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:21.936][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 23:13:21.938][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 23:13:21.939][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:21.940][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:21.942][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 23:13:21.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 23:13:21.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:21.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:21.947][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:21.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:21.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:21.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:21.951][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:21.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:21.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:21.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:21.956][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:21.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:21.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:21.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:21.961][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:21.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:21.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:21.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:21.966][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:21.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:21.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:21.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:21.971][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:21.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:21.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:21.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:21.976][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:21.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:21.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:21.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:21.981][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:21.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:21.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:21.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:21.986][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:21.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:21.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:21.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:21.991][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:21.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:21.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:21.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:21.996][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2024-07-17 23:13:21.997][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:21.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:21.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:22.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:22.002][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:22.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:22.007][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:22.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:22.081][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[2024-07-17 23:13:22.084][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-17 23:13:22.087][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-07-17 23:13:22.089][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-17 23:13:22.095][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-07-17 23:13:22.099][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:22.100][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:22.101][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:22.115][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:22.116][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:22.118][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:22.119][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:22.120][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:22.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:22.125][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:22.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:22.130][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:22.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:22.136][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:22.137][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:22.138][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:22.155][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:22.156][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:22.157][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:22.159][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:22.160][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:22.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:22.165][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:22.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:22.170][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:22.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:22.175][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:22.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:22.180][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:22.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:22.186][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:22.187][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:22.188][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:22.204][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:22.206][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:22.208][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:22.210][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:22.212][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:22.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:22.220][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:22.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:22.225][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:22.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:22.230][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:22.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:22.236][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:22.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:22.241][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:22.242][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:22.243][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:22.250][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:22.252][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:22.253][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:22.254][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:22.255][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:22.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:22.260][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:22.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:22.266][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:22.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:22.271][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:22.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:22.276][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:22.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:22.281][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:22.282][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:22.283][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:22.301][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:22.304][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:22.305][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:22.306][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:22.308][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:22.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:22.313][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:22.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:22.318][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:22.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:22.323][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:22.324][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:22.325][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:22.335][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:22.337][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:22.339][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:22.340][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:22.342][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:22.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:22.347][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:22.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:22.355][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:22.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:22.361][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:22.363][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:22.364][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:22.371][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:22.372][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:22.373][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:22.375][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:22.376][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:22.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:22.381][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:22.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:22.386][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:22.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:22.391][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:22.392][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:22.393][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:22.405][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:22.406][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:22.407][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:22.408][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:22.410][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:22.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:22.415][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:22.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:22.421][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:22.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:22.426][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:22.427][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:22.428][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:22.440][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:22.442][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:22.443][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:22.444][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:22.446][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:22.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:22.451][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:22.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:22.456][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:22.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:22.461][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:22.462][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:22.463][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:22.473][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:22.474][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:22.475][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:22.476][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:22.478][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:22.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:22.483][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:22.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:22.488][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:22.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:22.493][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:22.494][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:22.495][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:22.504][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:22.506][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:22.507][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:22.508][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[2024-07-17 23:13:22.509][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:22.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:22.515][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:22.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:22.520][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:22.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:22.525][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:22.526][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:22.527][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:22.535][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:22.536][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:22.537][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:22.538][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:22.540][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:22.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:22.545][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:22.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:22.554][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:22.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:22.561][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:22.563][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:22.565][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:22.579][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:22.581][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:22.582][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:22.583][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:22.584][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:22.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:22.590][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:22.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:22.595][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:22.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:22.600][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:22.601][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:22.602][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:22.621][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:22.623][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:22.624][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:22.625][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:22.626][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:22.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:22.631][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:22.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:22.636][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:22.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:22.641][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:22.642][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:22.643][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:22.655][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:22.657][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:22.658][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:22.659][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.TRACE[2024-07-17 23:13:22.661][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:22.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:22.666][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:22.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:22.671][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:22.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:22.676][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:22.677][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:22.678][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:22.690][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:22.691][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:22.693][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:22.694][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:22.695][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:22.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:22.700][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:22.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:22.705][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:22.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:22.710][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:22.711][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:22.712][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:22.732][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:22.733][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:22.734][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:22.736][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[2024-07-17 23:13:22.737][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:22.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:22.742][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:22.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:22.747][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:22.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:22.752][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:22.754][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:22.755][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:22.768][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:22.770][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:22.772][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:22.774][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:22.777][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:22.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:22.785][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:22.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:22.794][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:22.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:22.802][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:22.804][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:22.806][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:22.821][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:22.822][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:22.823][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:22.825][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:22.826][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:22.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:22.831][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:22.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:22.836][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:22.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:22.842][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:22.843][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:22.844][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:22.856][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:22.858][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:22.859][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:22.860][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.TRACE[2024-07-17 23:13:22.862][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:22.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:22.867][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:22.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:22.873][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:22.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:22.930][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[2024-07-17 23:13:22.936][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-17 23:13:22.939][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2024-07-17 23:13:22.942][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-17 23:13:22.945][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2024-07-17 23:13:22.948][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:22.949][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:22.951][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:22.968][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:22.970][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:22.972][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:22.974][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[2024-07-17 23:13:22.976][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:22.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:22.985][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:22.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:22.993][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:22.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:22.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:22.999][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:23.000][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:23.001][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:23.010][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:23.012][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:23.013][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:23.014][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.TRACE[2024-07-17 23:13:23.016][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:23.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:23.021][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:23.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:23.026][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:23.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:23.031][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:23.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:23.036][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:23.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:23.041][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:23.042][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:23.043][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:23.060][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:23.061][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:23.062][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:23.064][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:23.066][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:23.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:23.071][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:23.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:23.077][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:23.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:23.082][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:23.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:23.087][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:23.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:23.092][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:23.093][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:23.095][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:23.109][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:23.111][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:23.114][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:23.116][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.TRACE[2024-07-17 23:13:23.118][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:23.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:23.127][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:23.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:23.135][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:23.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:23.144][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:23.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:23.153][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:23.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:23.163][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:23.165][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:23.167][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:23.176][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:23.177][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:23.179][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:23.180][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:23.181][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:23.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:23.187][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:23.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:23.193][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:23.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:23.199][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:23.201][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:23.203][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:23.222][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:23.224][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:23.225][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:23.227][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[2024-07-17 23:13:23.229][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:23.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:23.238][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:23.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:23.246][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:23.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:23.254][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:23.256][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:23.258][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:23.274][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:23.276][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:23.278][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:23.280][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:23.282][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:23.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:23.291][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:23.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:23.299][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:23.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:23.307][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:23.309][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:23.310][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:23.330][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:23.332][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:23.334][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:23.336][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:23.339][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:23.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:23.347][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:23.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:23.355][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:23.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:23.364][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:23.366][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:23.368][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:23.386][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:23.388][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:23.390][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:23.392][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[2024-07-17 23:13:23.394][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:23.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:23.402][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:23.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:23.410][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:23.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:23.418][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:23.420][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:23.421][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:23.430][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:23.431][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:23.433][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:23.434][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:23.436][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:23.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:23.444][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:23.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:23.452][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:23.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:23.460][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:23.462][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:23.464][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:23.476][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:23.478][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:23.480][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:23.482][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[2024-07-17 23:13:23.484][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:23.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:23.493][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:23.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:23.501][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:23.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:23.509][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:23.511][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:23.513][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:23.523][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:23.524][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:23.525][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:23.526][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:23.528][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:23.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:23.534][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:23.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:23.542][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:23.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:23.548][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:23.550][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:23.552][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:23.566][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:23.568][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:23.569][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:23.571][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:23.574][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:23.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:23.582][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:23.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:23.590][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:23.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:23.597][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:23.598][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:23.599][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:23.609][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:23.611][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:23.612][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:23.613][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:23.615][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:23.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:23.620][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:23.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:23.631][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:23.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:23.636][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:23.637][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:23.638][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:23.645][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:23.647][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:23.648][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:23.649][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:23.650][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:23.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:23.655][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:23.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:23.660][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:23.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:23.665][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:23.666][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:23.668][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:23.682][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:23.683][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:23.685][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:23.687][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:23.690][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:23.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:23.698][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:23.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:23.706][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:23.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:23.712][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:23.714][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:23.715][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:23.722][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:23.724][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:23.725][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:23.726][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.TRACE[2024-07-17 23:13:23.727][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:23.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:23.732][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:23.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:23.738][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:23.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:23.743][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:23.744][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:23.745][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:23.752][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:23.753][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:23.754][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:23.755][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:23.757][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:23.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:23.762][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:23.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:23.770][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:23.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:23.776][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:23.777][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:23.778][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:23.794][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:23.796][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:23.798][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:23.800][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[2024-07-17 23:13:23.802][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:23.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:23.811][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:23.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:23.819][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:23.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:23.827][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:23.830][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:23.832][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:23.848][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:23.850][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:23.852][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:23.853][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:23.855][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:23.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:23.860][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:23.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:23.866][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:23.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:23.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:23.913][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-07-17 23:13:23.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-07-17 23:13:23.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:23.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-07-17 23:13:23.948][biodb::testThat]
biodb.INFO [2024-07-17 23:13:23.949][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2024-07-17 23:13:23.951][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-17 23:13:23.952][biodb::testThat]
biodb.TRACE[2024-07-17 23:13:23.956][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-17 23:13:23.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-17 23:13:23.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:23.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:23.962][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:23.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:23.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:23.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:23.967][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:23.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:23.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:23.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:23.972][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:23.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:23.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:23.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:23.977][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:23.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:23.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:23.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:23.985][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:23.987][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:23.988][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:24.004][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:24.006][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:24.008][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:24.009][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:24.013][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[2024-07-17 23:13:24.017][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-17 23:13:24.018][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-17 23:13:24.021][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-07-17 23:13:24.720][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-07-17 23:13:25.083][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-17 23:13:25.086][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content"
biodb.TRACE[2024-07-17 23:13:25.094][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.request"
biodb.DEBUG[2024-07-17 23:13:25.099][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:25.101][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:25.103][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:25.112][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:25.113][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:25.115][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:25.116][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:25.117][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:25.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:25.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:25.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:25.124][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:25.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:25.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:25.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:25.130][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:25.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:25.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:25.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:25.137][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-17 23:13:25.143][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-17 23:13:25.145][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-17 23:13:25.149][private$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[2024-07-17 23:13:25.523][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[2024-07-17 23:13:25.906][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-17 23:13:25.911][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content"
biodb.TRACE[2024-07-17 23:13:25.918][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.request"
biodb.DEBUG[2024-07-17 23:13:25.923][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:25.924][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:25.925][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:26.016][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:26.017][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:26.019][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:26.020][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:26.022][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:26.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:26.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:26.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:26.027][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:26.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:26.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:26.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:26.032][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:26.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:26.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:26.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:26.038][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:26.039][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:26.040][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:26.055][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:26.057][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:26.059][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:26.061][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:26.064][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:26.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:26.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:26.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:26.072][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:26.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:26.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:26.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:26.081][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:26.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:26.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:26.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:26.089][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-17 23:13:26.092][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:26.094][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:26.096][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:26.110][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:26.112][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:26.113][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:26.114][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:26.116][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:26.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:26.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:26.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:26.121][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:26.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:26.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:26.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:26.126][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-17 23:13:26.127][private$selectFields]
biodb.TRACE[2024-07-17 23:13:26.128][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-17 23:13:26.129][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-17 23:13:26.130][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-17 23:13:26.132][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:26.133][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:26.134][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:26.135][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:26.137][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:26.138][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:26.139][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:26.140][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:26.141][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-17 23:13:26.143][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-17 23:13:26.144][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:26.145][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:26.146][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:26.147][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:26.149][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-17 23:13:26.150][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:26.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:26.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:26.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:26.164][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:26.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:26.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:26.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:26.176][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:26.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:26.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:26.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:26.198][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2024-07-17 23:13:26.200][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:26.202][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:26.204][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:26.222][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:26.224][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:26.225][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:26.226][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:26.228][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:26.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:26.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:26.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:26.233][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:26.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:26.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:26.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:26.238][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-17 23:13:26.239][private$selectFields]
biodb.TRACE[2024-07-17 23:13:26.240][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-17 23:13:26.242][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-17 23:13:26.243][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-17 23:13:26.244][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:26.245][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:26.247][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:26.248][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:26.249][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:26.251][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:26.252][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:26.253][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:26.254][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-17 23:13:26.256][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-17 23:13:26.257][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:26.259][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:26.260][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:26.261][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:26.262][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-17 23:13:26.263][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:26.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:26.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:26.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:26.269][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:26.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:26.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:26.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:26.274][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:26.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:26.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:26.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:26.279][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-07-17 23:13:26.281][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:26.282][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:26.283][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:26.290][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:26.292][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:26.293][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:26.294][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:26.296][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:26.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:26.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:26.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:26.301][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:26.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:26.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:26.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:26.306][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-17 23:13:26.307][private$selectFields]
biodb.TRACE[2024-07-17 23:13:26.308][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-17 23:13:26.310][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-17 23:13:26.311][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-17 23:13:26.312][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:26.314][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:26.315][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:26.316][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:26.317][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:26.319][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:26.320][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:26.321][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:26.323][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-17 23:13:26.324][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-17 23:13:26.325][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:26.327][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:26.329][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:26.330][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:26.332][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-17 23:13:26.334][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:26.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:26.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:26.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:26.342][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:26.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:26.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:26.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:26.351][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:26.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:26.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:26.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:26.357][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2024-07-17 23:13:26.359][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-17 23:13:26.361][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-07-17 23:13:26.384][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:26.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:26.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:26.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:26.393][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:26.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:26.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:26.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:26.401][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:26.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:26.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:26.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:26.408][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:26.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:26.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:26.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:26.460][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:26.462][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:26.463][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:26.470][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:26.472][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:26.473][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:26.474][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[2024-07-17 23:13:26.478][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[2024-07-17 23:13:26.483][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-17 23:13:26.484][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-17 23:13:26.487][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2024-07-17 23:13:26.857][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2024-07-17 23:13:27.221][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-17 23:13:27.224][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content"
biodb.TRACE[2024-07-17 23:13:27.230][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.request"
biodb.DEBUG[2024-07-17 23:13:27.237][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2024-07-17 23:13:27.243][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-17 23:13:27.245][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-17 23:13:27.249][private$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[2024-07-17 23:13:27.615][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[2024-07-17 23:13:27.987][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-17 23:13:27.991][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content"
biodb.TRACE[2024-07-17 23:13:27.996][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.request"
biodb.DEBUG[2024-07-17 23:13:28.002][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:28.004][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:28.006][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:28.028][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:28.030][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:28.032][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:28.034][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:28.036][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:28.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:28.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:28.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:28.041][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:28.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:28.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:28.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:28.046][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:28.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:28.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:28.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:28.051][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:28.052][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:28.053][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:28.068][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:28.069][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:28.071][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:28.072][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:28.073][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:28.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:28.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:28.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:28.079][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:28.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:28.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:28.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:28.084][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:28.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:28.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:28.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:28.089][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:28.090][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:28.091][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:28.105][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:28.107][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:28.109][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:28.111][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:28.112][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:28.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:28.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:28.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:28.118][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:28.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:28.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:28.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:28.123][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:28.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:28.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:28.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:28.158][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-17 23:13:28.180][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:28.182][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:28.183][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:28.196][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:28.197][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:28.199][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:28.200][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:28.201][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:28.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:28.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:28.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:28.206][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:28.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:28.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:28.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:28.211][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-17 23:13:28.212][private$selectFields]
biodb.TRACE[2024-07-17 23:13:28.214][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-17 23:13:28.215][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-17 23:13:28.216][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-17 23:13:28.217][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:28.218][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:28.220][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:28.221][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:28.222][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:28.223][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:28.224][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:28.226][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:28.227][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-17 23:13:28.228][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-17 23:13:28.229][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:28.230][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:28.232][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:28.233][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:28.234][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-17 23:13:28.235][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:28.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:28.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:28.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:28.240][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:28.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:28.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:28.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:28.245][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:28.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:28.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:28.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:28.251][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2024-07-17 23:13:28.252][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:28.253][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:28.254][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:28.265][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:28.267][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:28.268][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:28.269][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:28.282][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:28.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:28.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:28.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:28.288][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:28.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:28.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:28.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:28.311][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-17 23:13:28.312][private$selectFields]
biodb.TRACE[2024-07-17 23:13:28.314][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-17 23:13:28.315][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-17 23:13:28.316][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-17 23:13:28.317][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:28.319][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:28.320][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:28.321][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:28.322][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:28.323][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:28.325][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:28.326][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:28.327][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-17 23:13:28.338][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-17 23:13:28.339][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:28.341][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:28.343][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:28.345][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:28.347][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-17 23:13:28.349][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:28.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:28.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:28.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:28.357][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:28.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:28.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:28.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:28.366][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:28.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:28.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:28.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:28.375][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-07-17 23:13:28.377][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:28.379][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:28.380][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:28.394][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:28.395][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:28.396][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:28.398][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:28.399][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:28.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:28.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:28.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:28.404][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:28.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:28.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:28.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:28.411][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-17 23:13:28.413][private$selectFields]
biodb.TRACE[2024-07-17 23:13:28.415][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-17 23:13:28.417][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-17 23:13:28.419][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-17 23:13:28.421][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:28.423][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:28.425][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:28.427][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:28.429][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:28.431][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:28.433][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:28.435][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:28.437][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-17 23:13:28.439][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-17 23:13:28.441][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:28.443][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:28.445][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:28.447][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:28.449][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-17 23:13:28.452][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:28.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:28.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:28.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:28.460][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:28.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:28.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:28.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:28.468][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:28.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:28.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:28.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:28.475][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2024-07-17 23:13:28.476][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-17 23:13:28.477][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-07-17 23:13:28.490][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-07-17 23:13:28.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-07-17 23:13:28.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:28.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-07-17 23:13:28.506][biodb::testThat]
biodb.INFO [2024-07-17 23:13:28.507][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2024-07-17 23:13:28.508][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-17 23:13:28.509][biodb::testThat]
biodb.TRACE[2024-07-17 23:13:28.513][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-17 23:13:28.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-17 23:13:28.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:28.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:28.518][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:28.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:28.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:28.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:28.525][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:28.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:28.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:28.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:28.530][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:28.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:28.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:28.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:28.535][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:28.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:28.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:28.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:28.543][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:28.544][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:28.545][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:28.556][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:28.557][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:28.559][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:28.560][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:28.563][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[2024-07-17 23:13:28.567][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-17 23:13:28.569][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2024-07-17 23:13:28.571][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-17 23:13:28.573][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2024-07-17 23:13:28.576][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:28.577][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:28.578][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:28.590][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:28.591][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:28.592][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:28.593][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.TRACE[2024-07-17 23:13:28.595][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:28.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:28.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:28.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:28.600][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:28.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:28.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:28.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:28.607][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:28.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:28.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:28.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:28.616][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[2024-07-17 23:13:28.628][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-17 23:13:28.631][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2024-07-17 23:13:28.634][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-17 23:13:28.637][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2024-07-17 23:13:28.642][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:28.644][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:28.646][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:28.659][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:28.661][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:28.662][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:28.663][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.TRACE[2024-07-17 23:13:28.664][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:28.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:28.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:28.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:28.669][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:28.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:28.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:28.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:28.674][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:28.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:28.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:28.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:28.679][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:28.680][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:28.681][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:28.695][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:28.696][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:28.698][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:28.699][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:28.700][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:28.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:28.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:28.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:28.705][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:28.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:28.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:28.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:28.710][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:28.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:28.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:28.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:28.715][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-17 23:13:28.717][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:28.718][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:28.720][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:28.735][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:28.736][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:28.738][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:28.739][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:28.740][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:28.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:28.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:28.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:28.745][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:28.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:28.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:28.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:28.750][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-17 23:13:28.751][private$selectFields]
biodb.TRACE[2024-07-17 23:13:28.752][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-17 23:13:28.754][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-17 23:13:28.755][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-17 23:13:28.756][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:28.757][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:28.759][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:28.760][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:28.761][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:28.762][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:28.764][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:28.765][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:28.766][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-17 23:13:28.767][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-17 23:13:28.768][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:28.770][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:28.771][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:28.772][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:28.773][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-17 23:13:28.775][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:28.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:28.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:28.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:28.780][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:28.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:28.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:28.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:28.785][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:28.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:28.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:28.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:28.790][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2024-07-17 23:13:28.792][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:28.793][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:28.794][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:29.104][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:29.106][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:29.107][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:29.108][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:29.110][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:29.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:29.115][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:29.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:29.120][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-17 23:13:29.121][private$selectFields]
biodb.TRACE[2024-07-17 23:13:29.122][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-17 23:13:29.123][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-17 23:13:29.124][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-17 23:13:29.125][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.127][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.128][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:29.129][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:29.130][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.132][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.133][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:29.134][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:29.135][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-17 23:13:29.136][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-17 23:13:29.138][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.139][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.140][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:29.141][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:29.143][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-17 23:13:29.144][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:29.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:29.151][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:29.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:29.159][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:29.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:29.165][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-07-17 23:13:29.166][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:29.167][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:29.168][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:29.185][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:29.188][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:29.190][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:29.192][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:29.194][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:29.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:29.203][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:29.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:29.211][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-17 23:13:29.213][private$selectFields]
biodb.TRACE[2024-07-17 23:13:29.215][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-17 23:13:29.217][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-17 23:13:29.219][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-17 23:13:29.221][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.223][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.225][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:29.227][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:29.229][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.231][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.233][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:29.235][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:29.237][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-17 23:13:29.239][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-17 23:13:29.241][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.243][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.245][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:29.247][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:29.249][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-17 23:13:29.251][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:29.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:29.259][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:29.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:29.267][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:29.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:29.276][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2024-07-17 23:13:29.278][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-17 23:13:29.280][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-07-17 23:13:29.298][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:29.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:29.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:29.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:29.307][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:29.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:29.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:29.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:29.315][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:29.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:29.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:29.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:29.324][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:29.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:29.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:29.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:29.336][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:29.338][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:29.340][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:29.351][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:29.352][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:29.354][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:29.355][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:29.359][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[2024-07-17 23:13:29.363][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-17 23:13:29.365][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2024-07-17 23:13:29.367][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-17 23:13:29.370][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2024-07-17 23:13:29.374][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[2024-07-17 23:13:29.378][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-17 23:13:29.381][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2024-07-17 23:13:29.382][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-17 23:13:29.388][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2024-07-17 23:13:29.392][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:29.393][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:29.394][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:29.416][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:29.419][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:29.421][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:29.423][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.TRACE[2024-07-17 23:13:29.425][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:29.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:29.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:29.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:29.434][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:29.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:29.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:29.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:29.442][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:29.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:29.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:29.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:29.450][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:29.452][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:29.454][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:29.476][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:29.477][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:29.478][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:29.480][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:29.482][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:29.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:29.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:29.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:29.488][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:29.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:29.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:29.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:29.496][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:29.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:29.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:29.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:29.501][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:29.503][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:29.504][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:29.511][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:29.513][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:29.514][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:29.515][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.TRACE[2024-07-17 23:13:29.517][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:29.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:29.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:29.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:29.522][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:29.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:29.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:29.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:29.527][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:29.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:29.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:29.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:29.533][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-17 23:13:29.535][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:29.536][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:29.537][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:29.544][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:29.546][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:29.547][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:29.548][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.TRACE[2024-07-17 23:13:29.550][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:29.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:29.555][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:29.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:29.567][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-17 23:13:29.568][private$selectFields]
biodb.TRACE[2024-07-17 23:13:29.569][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-17 23:13:29.571][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-17 23:13:29.572][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-17 23:13:29.573][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.575][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.576][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:29.577][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:29.578][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.580][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.581][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:29.582][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:29.583][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-17 23:13:29.585][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-17 23:13:29.586][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.587][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.588][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:29.589][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:29.591][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-17 23:13:29.592][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:29.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:29.597][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:29.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:29.602][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:29.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:29.608][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2024-07-17 23:13:29.609][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:29.611][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:29.612][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:29.623][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:29.624][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:29.626][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:29.627][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:29.628][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:29.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:29.633][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:29.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:29.638][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-17 23:13:29.639][private$selectFields]
biodb.TRACE[2024-07-17 23:13:29.641][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-17 23:13:29.642][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-17 23:13:29.643][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-17 23:13:29.644][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.646][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.647][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:29.648][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:29.649][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.651][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.652][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:29.653][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:29.654][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-17 23:13:29.656][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-17 23:13:29.657][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.658][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.659][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:29.661][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:29.662][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-17 23:13:29.663][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:29.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:29.668][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:29.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:29.673][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:29.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:29.679][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-07-17 23:13:29.680][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:29.681][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:29.682][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:29.690][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:29.692][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:29.693][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:29.695][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:29.696][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:29.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:29.701][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:29.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:29.706][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-17 23:13:29.708][private$selectFields]
biodb.TRACE[2024-07-17 23:13:29.709][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-17 23:13:29.710][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-17 23:13:29.711][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-17 23:13:29.712][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.714][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.715][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:29.716][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:29.717][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.719][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.720][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:29.721][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:29.723][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-17 23:13:29.724][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-17 23:13:29.725][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.726][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.728][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:29.729][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:29.730][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-17 23:13:29.731][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:29.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:29.736][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:29.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:29.741][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:29.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:29.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:29.747][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2024-07-17 23:13:29.748][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-17 23:13:29.749][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-07-17 23:13:29.766][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-07-17 23:13:29.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-07-17 23:13:29.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:29.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-07-17 23:13:29.784][biodb::testThat]
biodb.INFO [2024-07-17 23:13:29.786][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2024-07-17 23:13:29.787][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-17 23:13:29.789][biodb::testThat]
biodb.TRACE[2024-07-17 23:13:29.793][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2024-07-17 23:13:29.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2024-07-17 23:13:29.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:29.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:29.798][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:29.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:29.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:29.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:29.803][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:29.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:29.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:29.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:29.808][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:29.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:29.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:29.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:29.813][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:29.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:29.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:29.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:29.823][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:29.824][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:29.825][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:29.833][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:29.834][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:29.836][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:29.837][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:29.840][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[2024-07-17 23:13:29.844][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-17 23:13:29.847][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2024-07-17 23:13:29.849][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-17 23:13:29.853][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2024-07-17 23:13:29.857][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:29.859][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:29.861][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:29.877][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:29.879][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:29.881][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:29.883][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:29.886][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:29.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:29.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:29.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:29.894][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:29.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:29.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:29.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:29.903][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:29.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:29.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:29.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:29.913][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[2024-07-17 23:13:29.921][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-17 23:13:29.924][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2024-07-17 23:13:29.927][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-17 23:13:29.932][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2024-07-17 23:13:29.937][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:29.939][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:29.942][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:29.962][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:29.963][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:29.965][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:29.966][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:29.967][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:29.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:29.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:29.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:29.973][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:29.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:29.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:29.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:29.978][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:29.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:29.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:29.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:29.983][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:29.984][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:29.985][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:30.000][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:30.003][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:30.005][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:30.007][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:30.009][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:30.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:30.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:30.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:30.017][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:30.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:30.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:30.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:30.023][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:30.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:30.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:30.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:30.029][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-17 23:13:30.032][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:30.033][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:30.034][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:30.043][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:30.044][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:30.045][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:30.047][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:30.049][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:30.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:30.057][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:30.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:30.064][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-17 23:13:30.065][private$selectFields]
biodb.TRACE[2024-07-17 23:13:30.066][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-17 23:13:30.067][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-17 23:13:30.068][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-17 23:13:30.070][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.071][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.072][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:30.073][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:30.074][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.076][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.077][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:30.078][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:30.079][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-17 23:13:30.081][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-17 23:13:30.082][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.083][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.084][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:30.085][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:30.087][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-17 23:13:30.088][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:30.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:30.093][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:30.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:30.098][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:30.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:30.103][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2024-07-17 23:13:30.104][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:30.106][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:30.107][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:30.114][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:30.115][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:30.116][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:30.117][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:30.119][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:30.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:30.130][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:30.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:30.135][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-17 23:13:30.136][private$selectFields]
biodb.TRACE[2024-07-17 23:13:30.137][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-17 23:13:30.138][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-17 23:13:30.140][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-17 23:13:30.141][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.142][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.143][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:30.145][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:30.146][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.147][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.148][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:30.150][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:30.151][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-17 23:13:30.152][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-17 23:13:30.153][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.155][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.156][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:30.157][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:30.160][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-17 23:13:30.161][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:30.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:30.166][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:30.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:30.171][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:30.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:30.176][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-07-17 23:13:30.178][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:30.179][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:30.180][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:30.187][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:30.188][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:30.190][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:30.191][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:30.192][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:30.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:30.197][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:30.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:30.203][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-17 23:13:30.204][private$selectFields]
biodb.TRACE[2024-07-17 23:13:30.205][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-17 23:13:30.206][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-17 23:13:30.208][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-17 23:13:30.209][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.210][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.211][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:30.212][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:30.214][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.215][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.216][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:30.217][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:30.219][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-17 23:13:30.220][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-17 23:13:30.221][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.223][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.224][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:30.225][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:30.226][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-17 23:13:30.228][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:30.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:30.233][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:30.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:30.238][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:30.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:30.243][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2024-07-17 23:13:30.244][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-17 23:13:30.245][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-07-17 23:13:30.280][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:30.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:30.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:30.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:30.286][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:30.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:30.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:30.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:30.291][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:30.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:30.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:30.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:30.296][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:30.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:30.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:30.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:30.305][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:30.307][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:30.308][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:30.321][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:30.323][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:30.325][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:30.327][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:30.333][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[2024-07-17 23:13:30.338][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-17 23:13:30.341][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2024-07-17 23:13:30.343][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-17 23:13:30.347][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2024-07-17 23:13:30.352][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[2024-07-17 23:13:30.357][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-17 23:13:30.359][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2024-07-17 23:13:30.361][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-17 23:13:30.363][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2024-07-17 23:13:30.367][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:30.368][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:30.369][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:30.382][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:30.384][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:30.386][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:30.388][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:30.391][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:30.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:30.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:30.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:30.398][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:30.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:30.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:30.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:30.403][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:30.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:30.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:30.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:30.409][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:30.410][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:30.411][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:30.420][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:30.422][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:30.424][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:30.426][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:30.429][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:30.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:30.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:30.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:30.437][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:30.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:30.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:30.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:30.445][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:30.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:30.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:30.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:30.453][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:30.455][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:30.457][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:30.470][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:30.472][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:30.473][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:30.474][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.TRACE[2024-07-17 23:13:30.476][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:30.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:30.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:30.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:30.481][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:30.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:30.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:30.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:30.486][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:30.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:30.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:30.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:30.491][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2024-07-17 23:13:30.493][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:30.494][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:30.495][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:30.508][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:30.510][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:30.511][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:30.512][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[2024-07-17 23:13:30.513][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:30.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:30.519][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:30.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:30.524][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-17 23:13:30.525][private$selectFields]
biodb.TRACE[2024-07-17 23:13:30.526][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-17 23:13:30.527][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-17 23:13:30.528][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-17 23:13:30.530][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.531][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.532][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:30.533][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:30.535][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.536][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.537][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:30.538][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:30.539][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-17 23:13:30.541][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-17 23:13:30.542][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.543][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.544][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:30.546][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:30.547][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-17 23:13:30.548][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:30.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:30.553][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:30.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:30.558][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:30.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:30.563][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2024-07-17 23:13:30.565][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:30.566][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:30.567][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:30.574][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:30.575][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:30.577][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:30.578][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:30.579][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:30.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:30.584][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:30.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:30.589][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-17 23:13:30.591][private$selectFields]
biodb.TRACE[2024-07-17 23:13:30.592][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-17 23:13:30.593][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-17 23:13:30.594][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-17 23:13:30.596][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.597][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.598][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:30.599][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:30.601][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.602][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.603][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:30.605][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:30.606][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-17 23:13:30.607][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-17 23:13:30.609][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.610][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.611][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:30.612][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:30.614][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-17 23:13:30.615][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:30.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:30.621][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:30.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:30.627][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:30.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:30.633][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2024-07-17 23:13:30.635][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:30.636][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:30.637][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:30.652][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:30.653][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:30.654][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:30.655][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:30.657][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:30.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:30.664][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:30.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:30.675][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-17 23:13:30.676][private$selectFields]
biodb.TRACE[2024-07-17 23:13:30.677][private$selectFields] Fields is null: FALSE
biodb.TRACE[2024-07-17 23:13:30.678][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2024-07-17 23:13:30.680][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-17 23:13:30.681][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.682][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.684][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:30.685][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:30.686][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.687][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.689][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:30.690][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:30.691][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-17 23:13:30.692][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2024-07-17 23:13:30.694][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.695][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.696][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:30.697][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:30.699][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2024-07-17 23:13:30.700][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:30.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:30.705][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:30.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:30.710][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:30.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:30.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:30.715][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2024-07-17 23:13:30.716][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2024-07-17 23:13:30.718][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2024-07-17 23:13:30.789][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2024-07-17 23:13:30.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2024-07-17 23:13:30.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:30.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2024-07-17 23:13:30.820][biodb::testThat]
biodb.INFO [2024-07-17 23:13:30.821][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2024-07-17 23:13:30.822][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-17 23:13:30.824][biodb::testThat]
biodb.DEBUG[2024-07-17 23:13:30.826][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2024-07-17 23:13:30.827][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-17 23:13:30.829][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2024-07-17 23:13:30.831][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-17 23:13:30.832][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-17 23:13:30.834][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-17 23:13:30.835][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-17 23:13:30.837][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-17 23:13:30.838][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-17 23:13:30.841][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:30.842][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:30.843][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:30.851][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:30.852][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:30.853][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:30.854][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[2024-07-17 23:13:30.856][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGA".
biodb.DEBUG[2024-07-17 23:13:30.860][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-17 23:13:30.861][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-17 23:13:30.863][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGA".
biodb.TRACE[2024-07-17 23:13:31.226][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGA).
biodb.DEBUG[2024-07-17 23:13:31.589][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-17 23:13:31.593][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b5b4e4941cdc7bc8ff5e29f921c1e9db.content"
biodb.TRACE[2024-07-17 23:13:31.599][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b5b4e4941cdc7bc8ff5e29f921c1e9db.request"
biodb.TRACE[2024-07-17 23:13:31.603][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml"
biodb.DEBUG[2024-07-17 23:13:31.606][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-17 23:13:31.608][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-17 23:13:31.609][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-17 23:13:31.611][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:31.613][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:31.614][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:31.621][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:31.622][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:31.623][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:31.624][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:31.627][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:31.629][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:31.630][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:31.631][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:31.634][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:31.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:31.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:31.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:31.639][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-17 23:13:31.640][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-17 23:13:31.641][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:31.643][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:31.644][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 23:13:31.646][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 23:13:31.647][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:31.648][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:31.650][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 23:13:31.651][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 23:13:31.652][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:31.653][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:31.655][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 23:13:31.656][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 23:13:31.658][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:31.659][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:31.661][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:13:31.662][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:13:31.663][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:31.664][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:31.666][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-17 23:13:31.667][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:31.669][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:31.670][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:31.671][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:31.673][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:31.674][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:31.675][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:31.677][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-17 23:13:31.678][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 23:13:31.679][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:31.681][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:31.682][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-17 23:13:31.684][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-17 23:13:31.685][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:31.686][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:31.688][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 23:13:31.690][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 23:13:31.691][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:31.693][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:31.696][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:31.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:31.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:31.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:31.703][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:31.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:31.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:31.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:31.711][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:31.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:31.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:31.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:31.719][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:31.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:31.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:31.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:31.727][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:31.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:31.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:31.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:31.735][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:31.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:31.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:31.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:31.742][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:31.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:31.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:31.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:31.750][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:31.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:31.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:31.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:31.758][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:31.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:31.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:31.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:31.766][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:31.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:31.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:31.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:31.773][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2024-07-17 23:13:31.775][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2024-07-17 23:13:31.802][biodb::testThat]
biodb.INFO [2024-07-17 23:13:31.804][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2024-07-17 23:13:31.805][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-17 23:13:31.806][biodb::testThat]
biodb.DEBUG[2024-07-17 23:13:31.839][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2024-07-17 23:13:31.841][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2024-07-17 23:13:31.842][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
biodb.TRACE[2024-07-17 23:13:31.844][cch$loadFileContent] Trying to load 3 files from cache: [3]: "WRONGB, 2528, 7799".
biodb.TRACE[2024-07-17 23:13:31.846][cch$loadFileContent] file.exist = [3]: "FALSE, FALSE, FALSE".
biodb.TRACE[2024-07-17 23:13:31.847][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-17 23:13:31.849][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-17 23:13:31.850][conn$getEntryContent] 3 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-17 23:13:31.851][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-17 23:13:31.852][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-17 23:13:31.856][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:31.858][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:31.859][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:31.874][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:31.876][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:31.877][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:31.878][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:31.880][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGB".
biodb.DEBUG[2024-07-17 23:13:31.883][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-17 23:13:31.884][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-17 23:13:31.886][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGB".
biodb.TRACE[2024-07-17 23:13:32.246][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGB).
biodb.DEBUG[2024-07-17 23:13:32.626][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-17 23:13:32.629][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/32348f2b7cfb460a97c8a8aa145f239f.content"
biodb.TRACE[2024-07-17 23:13:32.633][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/32348f2b7cfb460a97c8a8aa145f239f.request"
biodb.DEBUG[2024-07-17 23:13:32.636][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:32.637][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:32.638][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:32.648][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:32.650][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:32.652][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:32.654][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[2024-07-17 23:13:32.656][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
biodb.DEBUG[2024-07-17 23:13:32.661][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-17 23:13:32.663][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-17 23:13:32.666][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
biodb.TRACE[2024-07-17 23:13:33.029][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
biodb.DEBUG[2024-07-17 23:13:33.393][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-17 23:13:33.396][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/65267cab26ad2d71ed08b12751f9bef2.content"
biodb.TRACE[2024-07-17 23:13:33.401][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/65267cab26ad2d71ed08b12751f9bef2.request"
biodb.DEBUG[2024-07-17 23:13:33.404][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:33.405][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:33.406][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:33.416][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:33.417][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:33.419][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:33.420][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:33.421][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
biodb.DEBUG[2024-07-17 23:13:33.425][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-17 23:13:33.426][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-17 23:13:33.428][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
biodb.TRACE[2024-07-17 23:13:33.790][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
biodb.DEBUG[2024-07-17 23:13:34.151][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-17 23:13:34.154][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/07eb1d5438367a7b1616709944d88b07.content"
biodb.TRACE[2024-07-17 23:13:34.159][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/07eb1d5438367a7b1616709944d88b07.request"
biodb.TRACE[2024-07-17 23:13:34.163][private$doSaveContentToFile] Saving to cache [3]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGB.xml, C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml, C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml"
biodb.DEBUG[2024-07-17 23:13:34.167][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-17 23:13:34.169][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2024-07-17 23:13:34.171][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2024-07-17 23:13:34.172][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:34.174][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:34.175][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:34.182][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:34.183][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:34.184][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:34.186][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:34.189][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:34.190][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:34.191][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.192][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.194][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:34.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:34.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.199][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-17 23:13:34.200][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-17 23:13:34.201][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.213][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.215][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 23:13:34.216][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 23:13:34.218][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.219][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.220][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 23:13:34.222][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 23:13:34.223][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.224][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.225][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 23:13:34.227][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 23:13:34.228][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.229][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.230][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:13:34.232][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:13:34.233][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.234][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.235][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-17 23:13:34.237][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:34.238][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.239][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.240][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:34.242][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:34.243][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.244][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.245][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-17 23:13:34.247][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 23:13:34.248][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.249][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.251][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-17 23:13:34.252][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-17 23:13:34.253][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.254][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.256][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 23:13:34.257][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 23:13:34.258][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.259][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.261][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:34.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:34.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.266][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:34.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:34.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.270][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:34.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:34.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.275][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:34.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:34.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.280][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:34.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:34.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.286][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:34.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:34.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.291][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:34.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:34.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:34.297][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:34.298][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:34.299][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:34.306][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:34.307][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:34.308][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:34.309][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:34.312][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:34.313][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:34.315][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.316][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.318][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:34.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:34.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.325][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-17 23:13:34.326][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-17 23:13:34.327][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.329][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.330][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-17 23:13:34.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-17 23:13:34.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.337][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 23:13:34.338][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 23:13:34.340][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.341][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.343][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 23:13:34.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 23:13:34.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.348][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 23:13:34.349][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 23:13:34.351][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.352][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.353][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 23:13:34.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 23:13:34.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.358][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 23:13:34.360][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 23:13:34.361][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.362][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.364][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 23:13:34.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 23:13:34.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.369][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:13:34.370][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:13:34.371][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.372][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.374][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:13:34.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:13:34.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.379][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-17 23:13:34.380][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:34.381][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.383][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.384][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-17 23:13:34.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:34.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.389][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:34.390][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:34.392][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.393][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.395][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:34.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:34.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.400][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-17 23:13:34.402][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 23:13:34.403][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.404][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.406][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 23:13:34.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 23:13:34.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.412][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-17 23:13:34.414][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-17 23:13:34.416][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.418][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.420][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-17 23:13:34.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-17 23:13:34.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.426][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 23:13:34.428][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 23:13:34.429][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.430][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.432][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 23:13:34.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 23:13:34.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.437][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:34.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:34.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.442][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:34.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:34.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.447][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:34.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:34.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.452][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:34.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:34.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.457][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:34.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:34.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.462][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:34.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:34.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.467][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:34.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:34.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:34.473][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:34.474][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:34.475][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:34.491][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:34.493][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:34.494][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:34.495][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:34.498][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:34.499][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:34.500][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.502][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.503][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:34.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:34.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.509][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-17 23:13:34.510][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-17 23:13:34.511][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.513][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.514][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-17 23:13:34.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-17 23:13:34.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.520][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 23:13:34.521][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 23:13:34.522][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.524][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.526][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 23:13:34.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 23:13:34.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.531][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 23:13:34.533][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 23:13:34.534][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.535][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.537][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 23:13:34.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 23:13:34.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.544][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 23:13:34.547][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 23:13:34.549][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.551][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.553][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 23:13:34.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 23:13:34.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.558][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:13:34.560][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:13:34.561][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.562][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.564][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:13:34.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:13:34.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.572][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-17 23:13:34.575][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:34.577][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.579][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.582][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-17 23:13:34.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:34.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.591][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:34.593][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:34.594][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.595][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.597][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:34.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:34.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.603][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-17 23:13:34.604][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 23:13:34.605][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.606][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.608][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 23:13:34.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 23:13:34.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.613][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-17 23:13:34.615][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-17 23:13:34.616][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.617][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.619][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-17 23:13:34.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-17 23:13:34.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.624][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 23:13:34.625][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 23:13:34.627][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.628][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.629][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 23:13:34.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 23:13:34.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.635][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:34.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:34.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.640][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:34.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:34.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.645][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:34.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:34.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.650][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:34.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:34.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.655][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:34.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:34.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.660][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:34.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:34.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.665][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:34.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:34.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.671][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:34.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:34.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.676][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:34.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:34.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.681][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:34.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:34.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.686][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:34.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:34.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.702][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:34.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:34.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.711][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:34.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:34.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.719][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:34.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:34.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.726][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:34.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:34.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:34.734][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:34.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:34.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:34.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:34.742][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2024-07-17 23:13:34.744][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2024-07-17 23:13:34.746][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2024-07-17 23:13:34.780][biodb::testThat]
biodb.INFO [2024-07-17 23:13:34.782][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2024-07-17 23:13:34.785][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-17 23:13:34.787][biodb::testThat]
biodb.INFO [2024-07-17 23:13:34.844][biodb::testThat]
biodb.INFO [2024-07-17 23:13:34.846][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2024-07-17 23:13:34.847][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-17 23:13:34.849][biodb::testThat]
biodb.INFO [2024-07-17 23:13:34.866][biodb::testThat]
biodb.INFO [2024-07-17 23:13:34.868][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2024-07-17 23:13:34.870][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-17 23:13:34.872][biodb::testThat]
biodb.DEBUG[2024-07-17 23:13:34.878][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[2024-07-17 23:13:34.884][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-17 23:13:34.886][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-17 23:13:34.890][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1%2A&searchCategory=CHEBI%20ID&maximumResults=100&starsCategory=ALL".
biodb.TRACE[2024-07-17 23:13:35.313][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1%2A&searchCategory=CHEBI%20ID&maximumResults=100&starsCategory=ALL).
biodb.DEBUG[2024-07-17 23:13:35.824][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-17 23:13:35.828][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/aed2cd6d5d221333c0a30a9f8dbc41b4.content"
biodb.TRACE[2024-07-17 23:13:35.834][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/aed2cd6d5d221333c0a30a9f8dbc41b4.request"
biodb.TRACE[2024-07-17 23:13:39.273][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-17 23:13:39.275][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 23:13:39.276][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:39.277][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:39.278][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:39.280][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:39.281][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:39.282][ef$get] fields variable is a list.
biodb.INFO [2024-07-17 23:13:39.284][biodb::testThat]
biodb.INFO [2024-07-17 23:13:39.285][biodb::testThat] Running test function  test.annotateMzValues  (" annotateMzValues() works correctly. ").
biodb.INFO [2024-07-17 23:13:39.286][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-17 23:13:39.288][biodb::testThat]
biodb.ERROR[2024-07-17 23:13:39.304][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2024-07-17 23:13:39.322][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2024-07-17 23:13:39.372][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-07-17 23:13:39.374][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2024-07-17 23:13:39.375][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2024-07-17 23:13:39.377][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-07-17 23:13:39.378][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:39.379][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:39.380][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:39.382][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:39.384][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:39.386][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-07-17 23:13:39.425][biodb::testContext]
biodb.INFO [2024-07-17 23:13:39.427][biodb::testContext] ********************************************************************************
biodb.INFO [2024-07-17 23:13:39.428][biodb::testContext] Test context - Test conversions
biodb.INFO [2024-07-17 23:13:39.429][biodb::testContext] ********************************************************************************
biodb.INFO [2024-07-17 23:13:39.430][biodb::testContext]
biodb.INFO [2024-07-17 23:13:39.438][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.13.0.
biodb.DEBUG[2024-07-17 23:13:39.441][self$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.20-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2024-07-17 23:13:39.482][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-17 23:13:39.483][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-07-17 23:13:39.485][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-07-17 23:13:39.487][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:39.489][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:39.491][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:39.493][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-07-17 23:13:39.495][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-07-17 23:13:39.496][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:39.497][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:39.499][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:39.500][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-07-17 23:13:39.501][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-07-17 23:13:39.502][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:39.503][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:39.504][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[2024-07-17 23:13:39.506][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-07-17 23:13:39.507][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-07-17 23:13:39.508][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-07-17 23:13:39.509][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:39.510][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:39.511][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:39.513][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-07-17 23:13:39.514][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-07-17 23:13:39.515][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-07-17 23:13:39.516][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:39.517][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:39.519][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:39.520][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-07-17 23:13:39.521][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-07-17 23:13:39.522][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:39.523][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:39.524][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:39.526][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-07-17 23:13:39.527][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-07-17 23:13:39.528][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-07-17 23:13:39.529][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:39.530][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:39.531][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:39.533][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-07-17 23:13:39.534][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-07-17 23:13:39.535][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:39.536][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:39.538][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:39.540][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-07-17 23:13:39.542][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-07-17 23:13:39.545][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-07-17 23:13:39.546][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:39.548][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:39.550][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:39.552][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-07-17 23:13:39.555][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-07-17 23:13:39.557][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-07-17 23:13:39.559][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-07-17 23:13:39.561][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-07-17 23:13:39.563][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-07-17 23:13:39.565][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:39.567][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:39.569][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:39.571][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-07-17 23:13:39.573][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-07-17 23:13:39.575][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:39.577][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:39.579][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:39.581][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-07-17 23:13:39.583][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-07-17 23:13:39.584][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:39.586][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:39.587][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:39.588][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-07-17 23:13:39.589][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-07-17 23:13:39.590][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:39.591][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:39.593][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[2024-07-17 23:13:39.594][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-07-17 23:13:39.595][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-07-17 23:13:39.596][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:39.597][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:39.598][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:39.600][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-07-17 23:13:39.601][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-07-17 23:13:39.602][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:39.603][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:39.604][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:39.605][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-07-17 23:13:39.607][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-07-17 23:13:39.610][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-07-17 23:13:39.611][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:39.612][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:39.613][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:39.615][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-07-17 23:13:39.616][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-07-17 23:13:39.617][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-07-17 23:13:39.618][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:39.619][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:39.620][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[2024-07-17 23:13:39.622][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-07-17 23:13:39.624][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-17 23:13:39.637][self$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[2024-07-17 23:13:39.639][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-17 23:13:39.640][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-17 23:13:39.641][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-17 23:13:39.642][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-17 23:13:39.644][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-17 23:13:39.645][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-17 23:13:39.646][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-07-17 23:13:39.647][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-17 23:13:39.648][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-17 23:13:39.650][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-07-17 23:13:39.651][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-17 23:13:39.652][self$setPropertyValue]
biodb.DEBUG[2024-07-17 23:13:39.653][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-17 23:13:39.655][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-17 23:13:39.655][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-17 23:13:39.655][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-17 23:13:39.655][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-07-17 23:13:39.655][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-07-17 23:13:39.656][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-17 23:13:39.657][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 23:13:39.658][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 23:13:39.659][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-17 23:13:39.660][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 23:13:39.662][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 23:13:39.663][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-17 23:13:39.664][self$setPropertyValue]
biodb.DEBUG[2024-07-17 23:13:39.665][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-17 23:13:39.666][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-17 23:13:39.667][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-17 23:13:39.669][self$setPropertyValue]
biodb.DEBUG[2024-07-17 23:13:39.670][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-07-17 23:13:39.672][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-17 23:13:39.673][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-07-17 23:13:39.675][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-17 23:13:39.676][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-17 23:13:39.677][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-17 23:13:39.678][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-17 23:13:39.680][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-17 23:13:39.681][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-17 23:13:39.682][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-07-17 23:13:39.683][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-17 23:13:39.684][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-17 23:13:39.692][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-07-17 23:13:39.695][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-17 23:13:39.696][self$setPropertyValue]
biodb.DEBUG[2024-07-17 23:13:39.697][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-17 23:13:39.699][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-17 23:13:39.699][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-17 23:13:39.699][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-17 23:13:39.699][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-07-17 23:13:39.699][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-07-17 23:13:39.700][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-17 23:13:39.701][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 23:13:39.702][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 23:13:39.703][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-17 23:13:39.704][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 23:13:39.705][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 23:13:39.707][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-17 23:13:39.708][self$setPropertyValue]
biodb.DEBUG[2024-07-17 23:13:39.709][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-17 23:13:39.710][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-17 23:13:39.711][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-17 23:13:39.713][self$setPropertyValue]
biodb.DEBUG[2024-07-17 23:13:39.714][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-07-17 23:13:39.716][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-07-17 23:13:39.717][self$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[2024-07-17 23:13:39.718][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-17 23:13:39.719][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-17 23:13:39.721][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-17 23:13:39.722][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-17 23:13:39.723][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-17 23:13:39.724][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-17 23:13:39.725][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-07-17 23:13:39.727][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-17 23:13:39.728][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-07-17 23:13:39.729][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-07-17 23:13:39.730][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-17 23:13:39.731][self$setPropertyValue]
biodb.DEBUG[2024-07-17 23:13:39.733][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-17 23:13:39.734][self$setPropertyValue]
biodb.DEBUG[2024-07-17 23:13:39.735][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-17 23:13:39.736][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 23:13:39.737][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 23:13:39.739][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-17 23:13:39.740][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 23:13:39.741][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 23:13:39.742][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-17 23:13:39.743][self$setPropertyValue]
biodb.DEBUG[2024-07-17 23:13:39.745][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-17 23:13:39.746][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-17 23:13:39.747][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-17 23:13:39.748][self$setPropertyValue]
biodb.DEBUG[2024-07-17 23:13:39.749][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-07-17 23:13:39.751][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-07-17 23:13:39.752][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-07-17 23:13:39.754][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-17 23:13:39.755][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-17 23:13:39.756][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-17 23:13:39.757][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-17 23:13:39.759][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-17 23:13:39.760][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-17 23:13:39.761][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-07-17 23:13:39.762][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-17 23:13:39.763][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-07-17 23:13:39.765][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-07-17 23:13:39.766][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-17 23:13:39.767][self$setPropertyValue]
biodb.DEBUG[2024-07-17 23:13:39.768][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-17 23:13:39.769][self$setPropertyValue]
biodb.DEBUG[2024-07-17 23:13:39.771][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-17 23:13:39.772][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 23:13:39.773][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 23:13:39.774][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-17 23:13:39.775][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 23:13:39.776][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 23:13:39.778][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-17 23:13:39.779][self$setPropertyValue]
biodb.DEBUG[2024-07-17 23:13:39.780][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-17 23:13:39.781][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-17 23:13:39.782][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-17 23:13:39.783][self$setPropertyValue]
biodb.DEBUG[2024-07-17 23:13:39.785][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-17 23:13:39.786][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:39.787][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:39.788][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:39.790][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:39.791][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:39.792][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:39.793][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:39.794][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:39.795][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:39.796][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:39.797][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:39.799][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:39.800][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:39.801][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:39.802][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:39.803][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:39.804][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:39.805][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:39.806][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:39.807][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:39.809][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:39.810][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:39.811][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:39.812][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:39.813][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:39.814][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:39.815][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:39.816][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:39.818][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:39.819][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:39.820][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:39.821][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:39.822][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:39.823][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:39.824][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:39.825][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:39.827][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[2024-07-17 23:13:39.828][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:39.829][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:39.830][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:39.831][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:39.832][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:39.833][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:39.834][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:39.836][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:39.837][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:39.838][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:39.839][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:39.840][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:39.841][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:39.842][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:39.844][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[2024-07-17 23:13:39.845][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:39.846][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:39.847][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:39.848][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:39.849][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:39.850][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:39.851][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:39.852][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:39.854][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:39.855][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:39.856][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:39.857][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:39.858][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:39.859][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:39.860][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[2024-07-17 23:13:39.861][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:39.862][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:39.863][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:39.865][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:39.866][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:39.867][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:39.868][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:39.869][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:39.870][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:39.871][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:39.872][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:39.873][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:39.875][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:39.876][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:39.877][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:39.878][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:39.879][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:39.880][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:39.881][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:39.882][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:39.884][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-07-17 23:13:39.885][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-07-17 23:13:39.887][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-07-17 23:13:39.888][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-07-17 23:13:39.890][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-07-17 23:13:39.892][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-07-17 23:13:39.893][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-07-17 23:13:39.895][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-07-17 23:13:39.896][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-07-17 23:13:39.898][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-07-17 23:13:39.900][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-07-17 23:13:39.901][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-07-17 23:13:39.903][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-07-17 23:13:39.904][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-07-17 23:13:39.906][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-07-17 23:13:39.907][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-07-17 23:13:39.909][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-07-17 23:13:39.911][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-07-17 23:13:39.912][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-07-17 23:13:39.914][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-07-17 23:13:39.915][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-07-17 23:13:39.917][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-07-17 23:13:39.919][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-07-17 23:13:39.920][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-07-17 23:13:39.922][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-07-17 23:13:39.923][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-07-17 23:13:39.925][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-07-17 23:13:39.927][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-07-17 23:13:39.928][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-07-17 23:13:39.930][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-07-17 23:13:39.931][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-07-17 23:13:39.933][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-07-17 23:13:39.935][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-07-17 23:13:39.936][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-07-17 23:13:39.938][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-07-17 23:13:39.939][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-07-17 23:13:39.941][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-07-17 23:13:39.942][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-07-17 23:13:39.944][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-07-17 23:13:39.946][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-07-17 23:13:39.947][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-07-17 23:13:39.949][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-07-17 23:13:39.950][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-07-17 23:13:39.952][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-07-17 23:13:39.954][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-07-17 23:13:39.955][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-07-17 23:13:39.957][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-07-17 23:13:39.959][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-07-17 23:13:39.960][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-07-17 23:13:39.962][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-07-17 23:13:39.963][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-07-17 23:13:39.965][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-07-17 23:13:39.966][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-07-17 23:13:39.968][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-07-17 23:13:39.970][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-07-17 23:13:39.971][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-07-17 23:13:39.973][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-07-17 23:13:39.974][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-07-17 23:13:39.976][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-07-17 23:13:39.978][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-07-17 23:13:39.979][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-07-17 23:13:39.981][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-07-17 23:13:39.982][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-07-17 23:13:39.984][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-07-17 23:13:39.986][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-07-17 23:13:39.987][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-07-17 23:13:39.989][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-07-17 23:13:39.990][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-07-17 23:13:39.992][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-07-17 23:13:39.994][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-07-17 23:13:39.995][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-07-17 23:13:39.997][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-07-17 23:13:39.998][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-07-17 23:13:40.000][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-07-17 23:13:40.002][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-07-17 23:13:40.003][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-07-17 23:13:40.005][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-07-17 23:13:40.006][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-07-17 23:13:40.008][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-07-17 23:13:40.010][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-07-17 23:13:40.011][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-07-17 23:13:40.013][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-07-17 23:13:40.014][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-07-17 23:13:40.016][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-07-17 23:13:40.019][initialize] This is biodb version 1.13.0.
biodb.DEBUG[2024-07-17 23:13:40.020][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-17 23:13:40.021][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:40.022][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:40.023][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:40.024][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:40.026][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:40.027][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:40.028][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:40.029][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:40.030][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:40.031][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:40.032][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[2024-07-17 23:13:40.033][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:40.034][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:40.036][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:40.037][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:40.038][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:40.039][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:40.040][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:40.041][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:40.042][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:40.043][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:40.045][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:40.046][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:40.047][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:40.048][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[2024-07-17 23:13:40.049][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:40.050][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:40.051][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:40.052][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:40.053][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:40.055][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:40.056][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:40.057][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:40.058][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:40.059][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:40.060][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:40.061][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:40.062][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:40.063][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[2024-07-17 23:13:40.065][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:40.066][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:40.067][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:40.068][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:40.069][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:40.070][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:40.071][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:40.072][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:40.073][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:40.074][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:40.076][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:40.077][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:40.078][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:40.079][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[2024-07-17 23:13:40.080][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:40.081][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:40.082][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:40.083][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:40.084][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:40.086][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:40.087][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:40.088][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:40.089][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:40.096][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:40.097][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:40.099][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:40.100][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:40.101][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[2024-07-17 23:13:40.102][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:40.103][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:40.104][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:40.105][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:40.106][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:40.107][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:40.108][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:40.109][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:40.111][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:40.112][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:40.113][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:40.114][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:40.115][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:40.116][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[2024-07-17 23:13:40.117][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:40.118][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:40.119][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:40.120][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:40.121][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:40.122][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:40.124][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:40.125][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:40.126][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:40.127][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:40.128][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:40.129][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:40.130][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:40.131][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:40.132][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:40.133][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:40.134][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:40.135][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:40.136][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:40.138][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:40.139][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[2024-07-17 23:13:40.140][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:40.141][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:40.142][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:40.143][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:40.144][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:40.145][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:40.146][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:40.147][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:40.148][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:40.150][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:40.151][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:40.152][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:40.153][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:40.154][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.DEBUG[2024-07-17 23:13:40.155][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:40.156][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:40.157][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:40.158][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:40.159][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:40.160][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:40.162][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[2024-07-17 23:13:40.402][biodb$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.20-bioc/R/library/biodbChebi/definitions.yml".
biodb.DEBUG[2024-07-17 23:13:40.460][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2024-07-17 23:13:40.463][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-17 23:13:40.464][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-07-17 23:13:40.465][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-17 23:13:40.466][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-17 23:13:40.468][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-17 23:13:40.469][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-17 23:13:40.470][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-07-17 23:13:40.471][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2024-07-17 23:13:40.472][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-07-17 23:13:40.474][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-17 23:13:40.475][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-17 23:13:40.476][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2024-07-17 23:13:40.477][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-17 23:13:40.478][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2024-07-17 23:13:40.478][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2024-07-17 23:13:40.478][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2024-07-17 23:13:40.478][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2024-07-17 23:13:40.478][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2024-07-17 23:13:40.478][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2024-07-17 23:13:40.478][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2024-07-17 23:13:40.478][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2024-07-17 23:13:40.478][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2024-07-17 23:13:40.478][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2024-07-17 23:13:40.478][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2024-07-17 23:13:40.480][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-07-17 23:13:40.481][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-17 23:13:40.481][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-17 23:13:40.481][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-17 23:13:40.482][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-07-17 23:13:40.483][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 23:13:40.485][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 23:13:40.486][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-17 23:13:40.487][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 23:13:40.488][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 23:13:40.489][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-17 23:13:40.490][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-17 23:13:40.490][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2024-07-17 23:13:40.492][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-17 23:13:40.493][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-17 23:13:40.494][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-07-17 23:13:40.495][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2024-07-17 23:13:40.495][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2024-07-17 23:13:40.497][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-07-17 23:13:40.500][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-07-17 23:13:40.502][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2024-07-17 23:13:40.503][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-07-17 23:13:40.505][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-07-17 23:13:40.508][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-07-17 23:13:40.514][super$initialize] Initialize connector chebi.
biodb.DEBUG[2024-07-17 23:13:40.516][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2024-07-17 23:13:40.519][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2024-07-17 23:13:40.521][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2024-07-17 23:13:40.523][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-17 23:13:40.524][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-17 23:13:40.526][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2024-07-17 23:13:40.527][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2024-07-17 23:13:40.529][biodb::testThat]
biodb.INFO [2024-07-17 23:13:40.530][biodb::testThat] Running test function  test_chebi_convCasToChebi  (" convCasToChebi() works. ").
biodb.INFO [2024-07-17 23:13:40.531][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-17 23:13:40.532][biodb::testThat]
biodb.DEBUG[2024-07-17 23:13:40.536][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2024-07-17 23:13:40.541][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-17 23:13:40.543][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-17 23:13:40.544][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.TRACE[2024-07-17 23:13:40.903][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl).
biodb.DEBUG[2024-07-17 23:13:41.342][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-17 23:13:41.345][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content"
biodb.TRACE[2024-07-17 23:13:41.350][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.request"
biodb.DEBUG[2024-07-17 23:13:41.355][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[2024-07-17 23:13:41.359][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-17 23:13:41.360][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-17 23:13:41.362][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2024-07-17 23:13:41.788][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2024-07-17 23:13:42.159][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-17 23:13:42.162][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content"
biodb.TRACE[2024-07-17 23:13:42.168][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.request"
biodb.DEBUG[2024-07-17 23:13:42.171][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:42.172][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:42.173][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:42.433][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:42.435][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:42.436][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:42.437][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:42.453][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-07-17 23:13:42.457][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-17 23:13:42.458][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-17 23:13:42.460][private$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[2024-07-17 23:13:42.820][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[2024-07-17 23:13:43.184][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-17 23:13:43.186][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content"
biodb.TRACE[2024-07-17 23:13:43.192][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.request"
biodb.DEBUG[2024-07-17 23:13:43.195][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:43.196][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:43.197][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:43.662][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:43.663][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:43.665][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:43.666][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:43.682][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:43.684][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:43.685][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:43.696][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:43.698][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:43.699][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:43.700][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:43.707][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[2024-07-17 23:13:43.711][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-17 23:13:43.712][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2024-07-17 23:13:43.714][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-17 23:13:43.716][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2024-07-17 23:13:43.718][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:43.720][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:43.721][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:43.737][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:43.738][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:43.739][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:43.740][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:43.743][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[2024-07-17 23:13:43.748][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-17 23:13:43.750][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2024-07-17 23:13:43.752][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-17 23:13:43.754][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2024-07-17 23:13:43.756][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:43.757][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:43.758][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:43.765][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:43.767][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:43.769][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:43.771][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:43.772][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:43.773][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:43.775][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:43.785][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:43.787][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:43.789][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:43.791][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[2024-07-17 23:13:43.798][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[2024-07-17 23:13:43.802][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-17 23:13:43.805][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2024-07-17 23:13:43.808][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-17 23:13:43.811][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2024-07-17 23:13:43.814][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:43.816][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:43.818][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:43.835][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:43.837][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:43.838][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:43.839][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:43.842][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[2024-07-17 23:13:43.845][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-17 23:13:43.847][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2024-07-17 23:13:43.849][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-17 23:13:43.852][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2024-07-17 23:13:43.854][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:43.855][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:43.857][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:43.866][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:43.868][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:43.869][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:43.870][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:43.872][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[2024-07-17 23:13:43.876][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-17 23:13:43.877][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-17 23:13:43.879][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=14215-68-0&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2024-07-17 23:13:44.242][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=14215-68-0&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2024-07-17 23:13:44.607][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-17 23:13:44.610][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70e3912746e7e39b39fbbffe6c90b502.content"
biodb.TRACE[2024-07-17 23:13:44.631][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70e3912746e7e39b39fbbffe6c90b502.request"
biodb.DEBUG[2024-07-17 23:13:44.635][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:44.636][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:44.638][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:44.659][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:44.660][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:44.661][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:44.663][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-07-17 23:13:44.678][biodb::testThat]
biodb.INFO [2024-07-17 23:13:44.681][biodb::testThat] Running test function  test_chebi_convInchiToChebi  (" convInchiToChebi() works. ").
biodb.INFO [2024-07-17 23:13:44.683][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-17 23:13:44.685][biodb::testThat]
biodb.DEBUG[2024-07-17 23:13:44.691][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=InChI=1S/C15H24/c1-9(2)11-7-8-15(4)12-6-5-10(3)14(15)13(11)12/h5,9,11-14H,6-8H2,1-4H3/t11?,12?,13?,14?,15-/m0/s1&searchCategory=INCHI/INCHI KEY&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-07-17 23:13:44.695][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-17 23:13:44.697][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-17 23:13:44.699][private$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[2024-07-17 23:13:45.071][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[2024-07-17 23:13:45.440][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-17 23:13:45.444][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/64007787a4f3864bb479683766386808.content"
biodb.TRACE[2024-07-17 23:13:45.452][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/64007787a4f3864bb479683766386808.request"
biodb.DEBUG[2024-07-17 23:13:45.456][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:45.457][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:45.458][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:45.467][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:45.468][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:45.469][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:45.470][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[2024-07-17 23:13:45.475][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[2024-07-17 23:13:45.479][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-17 23:13:45.480][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-17 23:13:45.483][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=VLXDPFLIRFYIME-MWHZVNNOSA-N&searchCategory=INCHI%2FINCHI%20KEY&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2024-07-17 23:13:45.843][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=VLXDPFLIRFYIME-MWHZVNNOSA-N&searchCategory=INCHI%2FINCHI%20KEY&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2024-07-17 23:13:46.206][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-17 23:13:46.209][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7547b08b3ebd50447d61026ab0af8d63.content"
biodb.TRACE[2024-07-17 23:13:46.215][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7547b08b3ebd50447d61026ab0af8d63.request"
biodb.DEBUG[2024-07-17 23:13:46.219][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:46.221][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:46.222][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:46.236][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:46.237][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:46.238][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:46.239][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-07-17 23:13:46.252][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-07-17 23:13:46.254][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2024-07-17 23:13:46.257][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2024-07-17 23:13:46.259][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-07-17 23:13:46.260][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:46.262][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:46.263][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:46.264][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:46.265][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:46.266][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-07-17 23:13:46.277][biodb::testContext]
biodb.INFO [2024-07-17 23:13:46.279][biodb::testContext] ********************************************************************************
biodb.INFO [2024-07-17 23:13:46.280][biodb::testContext] Test context - Test web services
biodb.INFO [2024-07-17 23:13:46.281][biodb::testContext] ********************************************************************************
biodb.INFO [2024-07-17 23:13:46.282][biodb::testContext]
biodb.INFO [2024-07-17 23:13:46.285][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.13.0.
biodb.DEBUG[2024-07-17 23:13:46.288][self$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.20-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2024-07-17 23:13:46.295][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-17 23:13:46.296][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-07-17 23:13:46.298][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-07-17 23:13:46.299][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:46.301][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:46.302][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:46.304][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-07-17 23:13:46.305][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-07-17 23:13:46.307][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:46.308][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:46.310][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:46.312][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-07-17 23:13:46.315][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-07-17 23:13:46.317][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:46.319][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:46.320][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:46.322][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-07-17 23:13:46.324][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-07-17 23:13:46.326][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-07-17 23:13:46.327][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:46.328][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:46.329][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:46.331][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-07-17 23:13:46.332][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-07-17 23:13:46.333][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-07-17 23:13:46.334][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:46.336][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:46.337][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:46.339][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-07-17 23:13:46.341][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-07-17 23:13:46.343][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:46.345][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:46.347][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:46.349][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-07-17 23:13:46.351][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-07-17 23:13:46.353][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-07-17 23:13:46.354][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:46.356][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:46.358][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:46.360][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-07-17 23:13:46.362][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-07-17 23:13:46.364][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:46.366][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:46.368][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:46.370][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-07-17 23:13:46.372][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-07-17 23:13:46.375][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-07-17 23:13:46.377][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:46.379][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:46.380][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:46.381][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-07-17 23:13:46.382][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-07-17 23:13:46.384][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-07-17 23:13:46.385][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-07-17 23:13:46.386][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-07-17 23:13:46.388][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-07-17 23:13:46.389][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:46.390][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:46.391][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:46.392][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-07-17 23:13:46.393][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-07-17 23:13:46.395][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:46.396][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:46.397][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[2024-07-17 23:13:46.398][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-07-17 23:13:46.399][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-07-17 23:13:46.400][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:46.402][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:46.403][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:46.404][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-07-17 23:13:46.405][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-07-17 23:13:46.406][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:46.407][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:46.409][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[2024-07-17 23:13:46.410][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-07-17 23:13:46.411][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-07-17 23:13:46.413][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:46.414][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:46.415][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:46.417][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-07-17 23:13:46.418][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-07-17 23:13:46.419][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:46.420][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:46.421][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:46.423][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-07-17 23:13:46.424][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-07-17 23:13:46.427][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-07-17 23:13:46.428][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:46.430][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:46.431][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:46.432][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-07-17 23:13:46.434][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-07-17 23:13:46.435][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-07-17 23:13:46.436][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:46.438][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:46.440][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:46.443][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-07-17 23:13:46.446][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-17 23:13:46.465][self$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[2024-07-17 23:13:46.466][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-17 23:13:46.468][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-17 23:13:46.469][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-17 23:13:46.470][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-17 23:13:46.471][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-17 23:13:46.473][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-17 23:13:46.474][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-07-17 23:13:46.475][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-17 23:13:46.476][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-17 23:13:46.478][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-07-17 23:13:46.479][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-17 23:13:46.480][self$setPropertyValue]
biodb.DEBUG[2024-07-17 23:13:46.481][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-17 23:13:46.483][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-17 23:13:46.483][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-17 23:13:46.483][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-17 23:13:46.483][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-07-17 23:13:46.483][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-07-17 23:13:46.484][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-17 23:13:46.485][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 23:13:46.486][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 23:13:46.487][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-17 23:13:46.489][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 23:13:46.490][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 23:13:46.491][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-17 23:13:46.492][self$setPropertyValue]
biodb.DEBUG[2024-07-17 23:13:46.493][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-17 23:13:46.495][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-17 23:13:46.496][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-17 23:13:46.497][self$setPropertyValue]
biodb.DEBUG[2024-07-17 23:13:46.498][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-07-17 23:13:46.500][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-17 23:13:46.502][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-07-17 23:13:46.503][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-17 23:13:46.504][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-17 23:13:46.505][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-17 23:13:46.506][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-17 23:13:46.508][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-17 23:13:46.509][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-17 23:13:46.510][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-07-17 23:13:46.512][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-17 23:13:46.513][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-17 23:13:46.514][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-07-17 23:13:46.515][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-17 23:13:46.516][self$setPropertyValue]
biodb.DEBUG[2024-07-17 23:13:46.518][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-17 23:13:46.519][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-17 23:13:46.519][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-17 23:13:46.519][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-17 23:13:46.519][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-07-17 23:13:46.519][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-07-17 23:13:46.520][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-17 23:13:46.521][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 23:13:46.523][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 23:13:46.524][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-17 23:13:46.525][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 23:13:46.526][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 23:13:46.527][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-17 23:13:46.529][self$setPropertyValue]
biodb.DEBUG[2024-07-17 23:13:46.530][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-17 23:13:46.531][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-17 23:13:46.532][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-17 23:13:46.533][self$setPropertyValue]
biodb.DEBUG[2024-07-17 23:13:46.535][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-07-17 23:13:46.537][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-07-17 23:13:46.538][self$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[2024-07-17 23:13:46.539][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-17 23:13:46.541][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-17 23:13:46.542][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-17 23:13:46.543][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-17 23:13:46.544][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-17 23:13:46.546][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-17 23:13:46.547][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-07-17 23:13:46.548][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-17 23:13:46.549][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-07-17 23:13:46.551][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-07-17 23:13:46.552][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-17 23:13:46.553][self$setPropertyValue]
biodb.DEBUG[2024-07-17 23:13:46.554][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-17 23:13:46.556][self$setPropertyValue]
biodb.DEBUG[2024-07-17 23:13:46.557][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-17 23:13:46.558][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 23:13:46.559][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 23:13:46.560][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-17 23:13:46.561][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 23:13:46.563][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 23:13:46.564][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-17 23:13:46.565][self$setPropertyValue]
biodb.DEBUG[2024-07-17 23:13:46.566][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-17 23:13:46.568][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-17 23:13:46.570][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-17 23:13:46.572][self$setPropertyValue]
biodb.DEBUG[2024-07-17 23:13:46.574][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-07-17 23:13:46.578][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-07-17 23:13:46.580][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-07-17 23:13:46.582][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-17 23:13:46.584][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-17 23:13:46.586][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-17 23:13:46.588][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-17 23:13:46.590][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-17 23:13:46.591][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-17 23:13:46.593][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-07-17 23:13:46.594][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-17 23:13:46.595][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-07-17 23:13:46.596][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-07-17 23:13:46.598][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-17 23:13:46.599][self$setPropertyValue]
biodb.DEBUG[2024-07-17 23:13:46.600][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-17 23:13:46.601][self$setPropertyValue]
biodb.DEBUG[2024-07-17 23:13:46.603][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-17 23:13:46.604][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 23:13:46.605][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 23:13:46.606][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-17 23:13:46.608][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 23:13:46.609][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 23:13:46.610][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-17 23:13:46.611][self$setPropertyValue]
biodb.DEBUG[2024-07-17 23:13:46.613][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-17 23:13:46.614][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-17 23:13:46.615][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-17 23:13:46.625][self$setPropertyValue]
biodb.DEBUG[2024-07-17 23:13:46.627][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-17 23:13:46.628][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:46.629][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:46.630][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:46.631][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:46.633][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:46.634][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:46.635][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:46.637][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:46.638][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:46.639][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:46.640][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:46.641][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:46.642][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:46.644][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:46.645][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:46.646][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:46.647][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:46.648][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:46.649][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:46.650][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:46.651][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:46.653][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:46.654][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:46.655][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:46.656][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:46.657][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:46.658][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:46.659][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:46.660][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:46.661][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:46.663][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:46.664][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:46.665][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:46.666][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:46.667][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:46.668][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:46.669][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.DEBUG[2024-07-17 23:13:46.670][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:46.671][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:46.672][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:46.674][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:46.675][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:46.676][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:46.677][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:46.678][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:46.679][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:46.680][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:46.681][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:46.683][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:46.684][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:46.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:46.686][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.DEBUG[2024-07-17 23:13:46.687][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:46.688][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:46.689][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:46.690][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:46.691][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:46.693][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:46.694][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:46.695][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:46.696][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:46.697][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[2024-07-17 23:13:46.698][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:46.699][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:46.700][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:46.701][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:46.702][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[2024-07-17 23:13:46.704][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:46.705][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:46.706][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:46.707][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:46.708][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:46.709][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:46.710][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:46.711][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:46.712][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:46.714][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:46.715][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:46.716][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:46.717][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:46.718][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:46.719][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:46.720][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:46.721][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:46.722][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:46.724][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:46.725][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:46.726][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-07-17 23:13:46.728][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-07-17 23:13:46.729][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-07-17 23:13:46.731][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-07-17 23:13:46.732][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-07-17 23:13:46.735][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-07-17 23:13:46.736][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-07-17 23:13:46.738][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-07-17 23:13:46.739][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-07-17 23:13:46.741][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-07-17 23:13:46.743][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-07-17 23:13:46.745][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-07-17 23:13:46.748][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-07-17 23:13:46.750][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-07-17 23:13:46.753][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-07-17 23:13:46.756][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-07-17 23:13:46.758][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-07-17 23:13:46.761][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-07-17 23:13:46.763][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-07-17 23:13:46.765][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-07-17 23:13:46.767][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-07-17 23:13:46.769][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-07-17 23:13:46.770][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-07-17 23:13:46.772][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-07-17 23:13:46.773][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-07-17 23:13:46.775][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-07-17 23:13:46.777][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-07-17 23:13:46.778][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-07-17 23:13:46.780][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-07-17 23:13:46.781][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-07-17 23:13:46.783][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-07-17 23:13:46.785][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-07-17 23:13:46.786][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-07-17 23:13:46.788][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-07-17 23:13:46.789][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-07-17 23:13:46.791][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-07-17 23:13:46.794][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-07-17 23:13:46.797][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-07-17 23:13:46.800][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-07-17 23:13:46.802][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-07-17 23:13:46.803][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-07-17 23:13:46.805][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-07-17 23:13:46.808][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-07-17 23:13:46.811][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-07-17 23:13:46.813][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-07-17 23:13:46.816][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-07-17 23:13:46.818][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-07-17 23:13:46.821][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-07-17 23:13:46.824][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-07-17 23:13:46.826][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-07-17 23:13:46.829][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-07-17 23:13:46.831][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-07-17 23:13:46.834][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-07-17 23:13:46.836][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-07-17 23:13:46.839][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-07-17 23:13:46.841][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-07-17 23:13:46.844][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-07-17 23:13:46.847][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-07-17 23:13:46.849][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-07-17 23:13:46.852][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-07-17 23:13:46.855][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-07-17 23:13:46.857][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-07-17 23:13:46.860][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-07-17 23:13:46.863][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-07-17 23:13:46.865][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-07-17 23:13:46.868][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-07-17 23:13:46.870][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-07-17 23:13:46.873][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-07-17 23:13:46.875][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-07-17 23:13:46.878][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-07-17 23:13:46.880][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-07-17 23:13:46.883][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-07-17 23:13:46.885][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-07-17 23:13:46.887][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-07-17 23:13:46.888][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-07-17 23:13:46.890][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-07-17 23:13:46.892][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-07-17 23:13:46.893][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-07-17 23:13:46.895][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-07-17 23:13:46.896][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-07-17 23:13:46.898][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-07-17 23:13:46.900][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-07-17 23:13:46.901][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-07-17 23:13:46.903][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-07-17 23:13:46.905][initialize] This is biodb version 1.13.0.
biodb.DEBUG[2024-07-17 23:13:46.907][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-17 23:13:46.908][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:46.909][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:46.910][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:46.911][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[2024-07-17 23:13:46.912][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:46.913][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:46.915][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:46.916][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:46.917][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:46.918][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:46.919][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:46.920][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:46.921][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:46.922][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:46.924][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:46.925][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:46.926][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:46.927][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:46.928][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:46.930][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:46.932][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:46.934][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:46.935][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:46.937][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:46.939][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:46.941][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:46.943][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:46.944][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:46.946][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:46.948][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:46.950][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:46.952][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:46.954][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:46.955][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:46.957][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:46.958][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:46.959][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:46.960][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:46.961][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:46.962][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:46.963][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:46.965][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:46.966][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:46.967][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:46.968][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:46.969][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:46.970][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:46.971][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:46.972][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:46.973][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:46.974][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:46.976][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:46.978][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:46.980][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:46.982][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:46.983][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:46.985][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:46.987][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:46.989][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:46.990][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:46.991][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:46.992][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:46.993][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:46.994][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:46.995][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:46.996][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:46.998][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:46.999][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:47.001][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:47.003][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:47.005][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:47.007][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:47.008][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:47.010][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:47.012][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:47.013][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:47.014][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:47.015][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:47.016][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:47.018][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:47.019][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:47.020][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:47.021][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:47.022][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:47.024][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:47.026][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:47.028][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:47.030][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:47.031][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:47.033][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:47.035][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:47.036][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:47.037][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:47.039][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:47.040][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:47.041][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:47.042][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:47.043][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:47.044][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:47.045][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:47.046][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:47.047][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:47.048][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:47.050][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:47.051][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:47.052][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:47.053][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:47.054][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:47.055][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:47.056][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:47.057][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:47.058][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:47.059][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:47.061][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:47.062][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:47.063][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[2024-07-17 23:13:47.064][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:47.065][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:47.066][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:47.067][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:47.068][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:47.069][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:47.071][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:47.074][biodb$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.20-bioc/R/library/biodbChebi/definitions.yml".
biodb.DEBUG[2024-07-17 23:13:47.076][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2024-07-17 23:13:47.079][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-17 23:13:47.080][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-07-17 23:13:47.081][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-17 23:13:47.082][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-17 23:13:47.084][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-17 23:13:47.085][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-17 23:13:47.086][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-07-17 23:13:47.087][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2024-07-17 23:13:47.089][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-07-17 23:13:47.090][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-17 23:13:47.091][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-17 23:13:47.093][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2024-07-17 23:13:47.101][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-17 23:13:47.102][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2024-07-17 23:13:47.102][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2024-07-17 23:13:47.102][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2024-07-17 23:13:47.102][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2024-07-17 23:13:47.102][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2024-07-17 23:13:47.102][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2024-07-17 23:13:47.102][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2024-07-17 23:13:47.102][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2024-07-17 23:13:47.102][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2024-07-17 23:13:47.102][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2024-07-17 23:13:47.102][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2024-07-17 23:13:47.103][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-07-17 23:13:47.105][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-17 23:13:47.105][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-17 23:13:47.105][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-17 23:13:47.106][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-07-17 23:13:47.107][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 23:13:47.109][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 23:13:47.111][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-17 23:13:47.113][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 23:13:47.115][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 23:13:47.117][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-17 23:13:47.119][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-17 23:13:47.119][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2024-07-17 23:13:47.121][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-17 23:13:47.122][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-17 23:13:47.123][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-07-17 23:13:47.124][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2024-07-17 23:13:47.124][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2024-07-17 23:13:47.126][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-07-17 23:13:47.129][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-07-17 23:13:47.131][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2024-07-17 23:13:47.134][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-07-17 23:13:47.136][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-07-17 23:13:47.137][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-07-17 23:13:47.141][super$initialize] Initialize connector chebi.
biodb.DEBUG[2024-07-17 23:13:47.142][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2024-07-17 23:13:47.144][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2024-07-17 23:13:47.146][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2024-07-17 23:13:47.147][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-17 23:13:47.148][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-17 23:13:47.150][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2024-07-17 23:13:47.151][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2024-07-17 23:13:47.153][biodb::testThat]
biodb.INFO [2024-07-17 23:13:47.154][biodb::testThat] Running test function  test.chebi.wsGetLiteEntity  (" Web service getLiteEntity works fine. ").
biodb.INFO [2024-07-17 23:13:47.156][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-17 23:13:47.157][biodb::testThat]
biodb.DEBUG[2024-07-17 23:13:47.160][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2024-07-17 23:13:47.165][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-17 23:13:47.167][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2024-07-17 23:13:47.169][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-17 23:13:47.172][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2024-07-17 23:13:47.176][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2024-07-17 23:13:47.180][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-17 23:13:47.182][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-17 23:13:47.185][private$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[2024-07-17 23:13:47.552][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[2024-07-17 23:13:47.915][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2024-07-17 23:13:47.918][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content"
biodb.TRACE[2024-07-17 23:13:47.924][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.request"
biodb.INFO [2024-07-17 23:13:47.936][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-07-17 23:13:47.938][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2024-07-17 23:13:47.939][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2024-07-17 23:13:47.940][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-07-17 23:13:47.941][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:47.942][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:47.944][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:47.945][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:47.946][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:47.947][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2024-07-17 23:13:47.969][biodb::testContext]
biodb.INFO [2024-07-17 23:13:47.972][biodb::testContext] ********************************************************************************
biodb.INFO [2024-07-17 23:13:47.974][biodb::testContext] Test context - Non regression tests
biodb.INFO [2024-07-17 23:13:47.976][biodb::testContext] ********************************************************************************
biodb.INFO [2024-07-17 23:13:47.978][biodb::testContext]
biodb.INFO [2024-07-17 23:13:47.982][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.13.0.
biodb.DEBUG[2024-07-17 23:13:47.985][self$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.20-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2024-07-17 23:13:47.994][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-17 23:13:47.997][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2024-07-17 23:13:47.999][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2024-07-17 23:13:48.000][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:48.002][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:48.004][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:48.006][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2024-07-17 23:13:48.008][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2024-07-17 23:13:48.010][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:48.012][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:48.013][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:48.015][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2024-07-17 23:13:48.018][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2024-07-17 23:13:48.019][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:48.021][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:48.023][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:48.025][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2024-07-17 23:13:48.027][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2024-07-17 23:13:48.029][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2024-07-17 23:13:48.031][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:48.032][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:48.034][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:48.036][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2024-07-17 23:13:48.038][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2024-07-17 23:13:48.040][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2024-07-17 23:13:48.042][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:48.044][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:48.046][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:48.048][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2024-07-17 23:13:48.050][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2024-07-17 23:13:48.052][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:48.053][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:48.055][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:48.057][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2024-07-17 23:13:48.059][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2024-07-17 23:13:48.061][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2024-07-17 23:13:48.062][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:48.064][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:48.066][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:48.068][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2024-07-17 23:13:48.070][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2024-07-17 23:13:48.071][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:48.073][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:48.075][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[2024-07-17 23:13:48.077][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2024-07-17 23:13:48.079][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2024-07-17 23:13:48.081][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2024-07-17 23:13:48.082][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:48.084][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:48.086][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:48.088][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2024-07-17 23:13:48.090][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2024-07-17 23:13:48.092][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2024-07-17 23:13:48.094][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2024-07-17 23:13:48.096][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2024-07-17 23:13:48.098][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2024-07-17 23:13:48.100][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:48.101][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:48.103][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[2024-07-17 23:13:48.105][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2024-07-17 23:13:48.107][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2024-07-17 23:13:48.108][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:48.109][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:48.110][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:48.112][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2024-07-17 23:13:48.113][self$set] Set key entries.sep to "|".
biodb.DEBUG[2024-07-17 23:13:48.114][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:48.115][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:48.117][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:48.118][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2024-07-17 23:13:48.119][self$set] Set key offline to FALSE.
biodb.DEBUG[2024-07-17 23:13:48.120][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:48.122][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:48.123][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:48.124][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2024-07-17 23:13:48.125][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2024-07-17 23:13:48.126][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:48.127][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:48.128][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[2024-07-17 23:13:48.130][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2024-07-17 23:13:48.131][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2024-07-17 23:13:48.132][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:48.133][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:48.134][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:48.135][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2024-07-17 23:13:48.137][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2024-07-17 23:13:48.140][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2024-07-17 23:13:48.141][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:48.142][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:48.143][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[2024-07-17 23:13:48.145][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2024-07-17 23:13:48.146][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2024-07-17 23:13:48.147][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2024-07-17 23:13:48.148][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:48.149][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:48.151][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:48.152][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2024-07-17 23:13:48.154][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-17 23:13:48.155][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2024-07-17 23:13:48.156][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-17 23:13:48.158][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-17 23:13:48.159][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-17 23:13:48.160][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-17 23:13:48.161][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-17 23:13:48.163][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-17 23:13:48.165][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-07-17 23:13:48.167][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-17 23:13:48.168][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-17 23:13:48.169][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2024-07-17 23:13:48.170][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-17 23:13:48.172][self$setPropertyValue]
biodb.DEBUG[2024-07-17 23:13:48.173][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-17 23:13:48.174][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-17 23:13:48.174][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-17 23:13:48.174][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-17 23:13:48.174][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-07-17 23:13:48.174][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-07-17 23:13:48.175][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-17 23:13:48.176][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 23:13:48.177][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 23:13:48.179][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-17 23:13:48.180][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 23:13:48.181][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 23:13:48.182][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-17 23:13:48.183][self$setPropertyValue]
biodb.DEBUG[2024-07-17 23:13:48.184][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-17 23:13:48.186][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-17 23:13:48.187][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-17 23:13:48.188][self$setPropertyValue]
biodb.DEBUG[2024-07-17 23:13:48.189][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2024-07-17 23:13:48.191][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-17 23:13:48.193][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2024-07-17 23:13:48.194][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-17 23:13:48.195][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-17 23:13:48.196][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-17 23:13:48.197][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-17 23:13:48.199][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-17 23:13:48.200][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-17 23:13:48.201][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-07-17 23:13:48.202][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-17 23:13:48.203][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-17 23:13:48.205][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2024-07-17 23:13:48.206][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-17 23:13:48.207][self$setPropertyValue]
biodb.DEBUG[2024-07-17 23:13:48.208][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-17 23:13:48.210][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-17 23:13:48.210][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-17 23:13:48.210][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-17 23:13:48.210][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2024-07-17 23:13:48.210][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2024-07-17 23:13:48.211][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-17 23:13:48.212][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 23:13:48.213][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 23:13:48.214][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-17 23:13:48.216][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 23:13:48.217][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 23:13:48.218][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-17 23:13:48.219][self$setPropertyValue]
biodb.DEBUG[2024-07-17 23:13:48.220][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-17 23:13:48.221][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-17 23:13:48.222][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-17 23:13:48.224][self$setPropertyValue]
biodb.DEBUG[2024-07-17 23:13:48.225][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2024-07-17 23:13:48.227][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-07-17 23:13:48.228][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2024-07-17 23:13:48.230][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-17 23:13:48.231][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-17 23:13:48.232][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-17 23:13:48.233][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-17 23:13:48.234][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-17 23:13:48.236][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-17 23:13:48.237][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2024-07-17 23:13:48.238][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-17 23:13:48.239][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-07-17 23:13:48.241][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2024-07-17 23:13:48.242][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-17 23:13:48.243][self$setPropertyValue]
biodb.DEBUG[2024-07-17 23:13:48.244][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-17 23:13:48.245][self$setPropertyValue]
biodb.DEBUG[2024-07-17 23:13:48.247][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-17 23:13:48.248][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 23:13:48.249][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 23:13:48.250][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-17 23:13:48.251][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 23:13:48.252][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 23:13:48.253][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-17 23:13:48.255][self$setPropertyValue]
biodb.DEBUG[2024-07-17 23:13:48.256][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-17 23:13:48.257][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-17 23:13:48.258][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-17 23:13:48.259][self$setPropertyValue]
biodb.DEBUG[2024-07-17 23:13:48.261][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2024-07-17 23:13:48.263][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2024-07-17 23:13:48.264][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2024-07-17 23:13:48.265][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-17 23:13:48.266][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-17 23:13:48.267][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-17 23:13:48.269][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-17 23:13:48.270][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2024-07-17 23:13:48.271][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2024-07-17 23:13:48.272][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2024-07-17 23:13:48.273][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-17 23:13:48.275][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2024-07-17 23:13:48.276][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2024-07-17 23:13:48.278][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-17 23:13:48.279][self$setPropertyValue]
biodb.DEBUG[2024-07-17 23:13:48.280][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2024-07-17 23:13:48.281][self$setPropertyValue]
biodb.DEBUG[2024-07-17 23:13:48.282][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2024-07-17 23:13:48.284][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 23:13:48.285][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 23:13:48.286][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-17 23:13:48.287][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 23:13:48.288][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 23:13:48.289][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-17 23:13:48.291][self$setPropertyValue]
biodb.DEBUG[2024-07-17 23:13:48.292][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-17 23:13:48.293][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-17 23:13:48.294][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2024-07-17 23:13:48.295][self$setPropertyValue]
biodb.DEBUG[2024-07-17 23:13:48.297][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-17 23:13:48.298][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:48.299][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:48.300][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:48.301][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:48.302][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:48.304][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:48.305][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:48.306][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:48.307][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:48.308][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:48.309][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:48.310][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:48.311][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:48.312][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:48.314][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:48.315][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:48.316][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:48.317][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:48.318][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:48.319][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:48.320][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:48.321][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:48.323][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:48.324][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:48.325][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:48.326][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:48.327][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:48.328][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:48.337][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:48.339][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:48.340][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:48.341][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:48.342][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:48.343][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:48.344][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:48.345][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:48.346][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:48.347][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:48.348][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:48.350][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:48.351][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:48.352][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:48.353][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:48.354][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:48.356][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:48.358][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:48.360][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:48.361][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:48.362][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:48.363][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:48.364][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:48.365][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:48.367][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:48.368][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:48.369][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:48.370][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:48.371][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:48.372][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:48.373][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:48.374][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:48.375][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:48.376][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:48.377][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:48.379][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:48.380][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:48.381][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:48.382][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:48.383][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:48.385][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:48.386][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:48.387][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:48.388][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:48.389][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:48.390][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:48.391][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:48.392][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:48.393][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:48.395][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:48.396][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:48.397][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:48.398][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:48.399][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:48.400][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:48.401][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:48.402][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:48.403][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:48.405][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.DEBUG[2024-07-17 23:13:48.406][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2024-07-17 23:13:48.407][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2024-07-17 23:13:48.409][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2024-07-17 23:13:48.411][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2024-07-17 23:13:48.412][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-07-17 23:13:48.414][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2024-07-17 23:13:48.415][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2024-07-17 23:13:48.417][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2024-07-17 23:13:48.419][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2024-07-17 23:13:48.420][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2024-07-17 23:13:48.422][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-07-17 23:13:48.423][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2024-07-17 23:13:48.425][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2024-07-17 23:13:48.426][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2024-07-17 23:13:48.428][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2024-07-17 23:13:48.430][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2024-07-17 23:13:48.431][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2024-07-17 23:13:48.433][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2024-07-17 23:13:48.434][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-07-17 23:13:48.436][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2024-07-17 23:13:48.437][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2024-07-17 23:13:48.439][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2024-07-17 23:13:48.440][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2024-07-17 23:13:48.442][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2024-07-17 23:13:48.444][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2024-07-17 23:13:48.445][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2024-07-17 23:13:48.447][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2024-07-17 23:13:48.448][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2024-07-17 23:13:48.450][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2024-07-17 23:13:48.452][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2024-07-17 23:13:48.453][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2024-07-17 23:13:48.455][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2024-07-17 23:13:48.456][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2024-07-17 23:13:48.458][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2024-07-17 23:13:48.460][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2024-07-17 23:13:48.461][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2024-07-17 23:13:48.463][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2024-07-17 23:13:48.465][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2024-07-17 23:13:48.468][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2024-07-17 23:13:48.470][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2024-07-17 23:13:48.472][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2024-07-17 23:13:48.473][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2024-07-17 23:13:48.475][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2024-07-17 23:13:48.477][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2024-07-17 23:13:48.478][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2024-07-17 23:13:48.480][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2024-07-17 23:13:48.481][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2024-07-17 23:13:48.483][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2024-07-17 23:13:48.485][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2024-07-17 23:13:48.486][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2024-07-17 23:13:48.488][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2024-07-17 23:13:48.489][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2024-07-17 23:13:48.491][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2024-07-17 23:13:48.492][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2024-07-17 23:13:48.494][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2024-07-17 23:13:48.496][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2024-07-17 23:13:48.497][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2024-07-17 23:13:48.499][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2024-07-17 23:13:48.500][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2024-07-17 23:13:48.502][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2024-07-17 23:13:48.503][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2024-07-17 23:13:48.505][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2024-07-17 23:13:48.507][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2024-07-17 23:13:48.508][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2024-07-17 23:13:48.510][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2024-07-17 23:13:48.511][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2024-07-17 23:13:48.513][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-07-17 23:13:48.515][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-07-17 23:13:48.516][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2024-07-17 23:13:48.518][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2024-07-17 23:13:48.519][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2024-07-17 23:13:48.521][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2024-07-17 23:13:48.522][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2024-07-17 23:13:48.524][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2024-07-17 23:13:48.526][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2024-07-17 23:13:48.527][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2024-07-17 23:13:48.529][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2024-07-17 23:13:48.531][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2024-07-17 23:13:48.532][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2024-07-17 23:13:48.534][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2024-07-17 23:13:48.536][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2024-07-17 23:13:48.537][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2024-07-17 23:13:48.539][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2024-07-17 23:13:48.541][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2024-07-17 23:13:48.543][initialize] This is biodb version 1.13.0.
biodb.DEBUG[2024-07-17 23:13:48.544][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2024-07-17 23:13:48.545][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:48.547][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:48.548][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:48.549][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[2024-07-17 23:13:48.550][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:48.551][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:48.553][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:48.554][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:48.555][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:48.556][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:48.558][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:48.559][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:48.561][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:48.563][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:48.565][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:48.567][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:48.569][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:48.571][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:48.573][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:48.575][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:48.576][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:48.578][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:48.580][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:48.582][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:48.584][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[2024-07-17 23:13:48.586][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:48.588][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:48.589][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:48.591][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:48.593][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:48.595][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:48.597][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[2024-07-17 23:13:48.599][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:48.601][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:48.602][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:48.604][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:48.606][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:48.608][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:48.610][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[2024-07-17 23:13:48.612][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:48.614][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:48.616][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:48.618][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:48.620][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:48.622][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:48.624][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[2024-07-17 23:13:48.626][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:48.627][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:48.629][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:48.631][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:48.633][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:48.635][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:48.637][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[2024-07-17 23:13:48.638][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:48.640][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:48.642][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:48.644][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:48.646][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:48.648][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:48.650][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:48.652][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:48.653][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:48.654][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:48.655][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:48.656][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:48.658][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:48.659][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[2024-07-17 23:13:48.660][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:48.661][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:48.662][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:48.663][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:48.664][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:48.665][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:48.666][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:48.668][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:48.669][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:48.670][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:48.671][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:48.672][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:48.673][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:48.674][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:48.675][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:48.676][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:48.677][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:48.679][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:48.680][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:48.681][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:48.682][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:48.683][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:48.684][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:48.685][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:48.686][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:48.688][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:48.689][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:48.690][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:48.691][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:48.692][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:48.693][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:48.695][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:48.697][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:48.699][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:48.701][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:48.703][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:48.705][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:48.706][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:48.708][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:48.710][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:48.712][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:48.714][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:48.716][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:48.717][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:48.718][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:48.719][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:48.720][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:48.721][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:48.722][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:48.724][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2024-07-17 23:13:48.725][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:48.726][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:48.727][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:48.728][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:48.729][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:48.730][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[2024-07-17 23:13:48.733][biodb$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.20-bioc/R/library/biodbChebi/definitions.yml".
biodb.DEBUG[2024-07-17 23:13:48.735][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2024-07-17 23:13:48.738][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2024-07-17 23:13:48.739][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2024-07-17 23:13:48.740][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2024-07-17 23:13:48.741][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2024-07-17 23:13:48.743][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2024-07-17 23:13:48.744][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2024-07-17 23:13:48.745][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2024-07-17 23:13:48.746][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2024-07-17 23:13:48.748][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2024-07-17 23:13:48.749][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2024-07-17 23:13:48.750][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2024-07-17 23:13:48.752][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2024-07-17 23:13:48.754][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2024-07-17 23:13:48.756][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2024-07-17 23:13:48.756][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2024-07-17 23:13:48.756][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2024-07-17 23:13:48.756][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2024-07-17 23:13:48.756][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2024-07-17 23:13:48.756][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2024-07-17 23:13:48.756][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2024-07-17 23:13:48.756][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2024-07-17 23:13:48.756][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2024-07-17 23:13:48.756][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2024-07-17 23:13:48.756][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2024-07-17 23:13:48.758][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2024-07-17 23:13:48.760][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2024-07-17 23:13:48.760][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2024-07-17 23:13:48.760][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2024-07-17 23:13:48.762][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2024-07-17 23:13:48.764][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 23:13:48.766][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 23:13:48.768][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2024-07-17 23:13:48.770][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2024-07-17 23:13:48.771][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2024-07-17 23:13:48.772][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2024-07-17 23:13:48.773][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-17 23:13:48.773][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2024-07-17 23:13:48.775][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2024-07-17 23:13:48.777][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2024-07-17 23:13:48.779][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2024-07-17 23:13:48.781][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2024-07-17 23:13:48.781][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2024-07-17 23:13:48.784][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2024-07-17 23:13:48.787][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2024-07-17 23:13:48.790][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2024-07-17 23:13:48.793][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2024-07-17 23:13:48.796][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2024-07-17 23:13:48.799][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2024-07-17 23:13:48.830][super$initialize] Initialize connector chebi.
biodb.DEBUG[2024-07-17 23:13:48.832][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2024-07-17 23:13:48.834][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2024-07-17 23:13:48.836][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2024-07-17 23:13:48.837][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-17 23:13:48.838][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2024-07-17 23:13:48.840][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2024-07-17 23:13:48.841][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2024-07-17 23:13:48.843][biodb::testThat]
biodb.INFO [2024-07-17 23:13:48.845][biodb::testThat] Running test function  test.chebi.encoding.issue.in.xml  (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2024-07-17 23:13:48.846][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2024-07-17 23:13:48.847][biodb::testThat]
biodb.DEBUG[2024-07-17 23:13:48.851][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2024-07-17 23:13:48.856][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-17 23:13:48.857][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2024-07-17 23:13:48.859][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-17 23:13:48.861][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2024-07-17 23:13:48.865][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[2024-07-17 23:13:48.869][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2024-07-17 23:13:48.871][cch$loadFileContent] Trying to load 1 files from cache: [1]: "04c26672f8368e71348af4b34238160e".
biodb.TRACE[2024-07-17 23:13:48.873][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2024-07-17 23:13:48.875][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content".
biodb.DEBUG[2024-07-17 23:13:48.880][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2024-07-17 23:13:48.881][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2024-07-17 23:13:48.883][cch$loadFileContent] Trying to load 1 files from cache: [1]: "2571".
biodb.TRACE[2024-07-17 23:13:48.884][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2024-07-17 23:13:48.886][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2024-07-17 23:13:48.887][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2024-07-17 23:13:48.889][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2024-07-17 23:13:48.890][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2024-07-17 23:13:48.891][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2024-07-17 23:13:48.894][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:48.895][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:48.896][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:48.909][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:48.911][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:48.912][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:48.913][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2024-07-17 23:13:48.915][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2571".
biodb.DEBUG[2024-07-17 23:13:48.918][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2024-07-17 23:13:48.919][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2024-07-17 23:13:48.921][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2571".
biodb.TRACE[2024-07-17 23:13:49.295][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2571).
biodb.DEBUG[2024-07-17 23:13:50.081][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2024-07-17 23:13:50.084][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/52df2611aa7f9f4c531cce8ac62e2fa0.content"
biodb.TRACE[2024-07-17 23:13:50.090][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/52df2611aa7f9f4c531cce8ac62e2fa0.request"
biodb.TRACE[2024-07-17 23:13:50.094][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml"
biodb.DEBUG[2024-07-17 23:13:50.097][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2024-07-17 23:13:50.098][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2024-07-17 23:13:50.100][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2024-07-17 23:13:50.102][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2024-07-17 23:13:50.103][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:50.104][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:50.111][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:50.112][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:50.113][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:50.115][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2024-07-17 23:13:50.120][ef$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:50.121][ef$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:50.123][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:50.124][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:50.126][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:50.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:50.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:50.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:50.131][ef$get] Asked field names are: charge.
biodb.TRACE[2024-07-17 23:13:50.132][ef$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-17 23:13:50.133][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:50.135][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:50.137][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2024-07-17 23:13:50.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2024-07-17 23:13:50.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:50.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:50.142][ef$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 23:13:50.143][ef$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 23:13:50.144][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:50.146][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:50.147][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2024-07-17 23:13:50.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2024-07-17 23:13:50.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:50.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:50.153][ef$get] Asked field names are: inchi.
biodb.TRACE[2024-07-17 23:13:50.154][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2024-07-17 23:13:50.156][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:50.158][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:50.160][ef$get] Asked field names are: inchikey.
biodb.TRACE[2024-07-17 23:13:50.162][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2024-07-17 23:13:50.164][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:50.166][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:50.169][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:13:50.171][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:13:50.172][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:50.173][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:50.175][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:13:50.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2024-07-17 23:13:50.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:50.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:50.180][ef$get] Asked field names are: mass.
biodb.TRACE[2024-07-17 23:13:50.182][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:50.183][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:50.184][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:50.186][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2024-07-17 23:13:50.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2024-07-17 23:13:50.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:50.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:50.191][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:50.193][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:50.194][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:50.195][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:50.197][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:50.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2024-07-17 23:13:50.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:50.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:50.202][ef$get] Asked field names are: name.
biodb.TRACE[2024-07-17 23:13:50.204][ef$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 23:13:50.205][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:50.206][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:50.208][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2024-07-17 23:13:50.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2024-07-17 23:13:50.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:50.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:50.213][ef$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-17 23:13:50.215][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-17 23:13:50.216][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:50.217][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:50.219][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2024-07-17 23:13:50.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2024-07-17 23:13:50.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:50.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:50.224][ef$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 23:13:50.226][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 23:13:50.227][ef$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:50.228][ef$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:50.230][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2024-07-17 23:13:50.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2024-07-17 23:13:50.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:50.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:50.235][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:50.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:50.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:50.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:50.240][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:50.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:50.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:50.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:50.245][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:50.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:50.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:50.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:50.250][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2024-07-17 23:13:50.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2024-07-17 23:13:50.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:50.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:50.255][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:50.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:50.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:50.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:50.260][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:50.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:50.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:50.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:50.265][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:50.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:50.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:50.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:50.271][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:50.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:50.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:50.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:50.276][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:50.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:50.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:50.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2024-07-17 23:13:50.281][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2024-07-17 23:13:50.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2024-07-17 23:13:50.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2024-07-17 23:13:50.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2024-07-17 23:13:50.286][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2024-07-17 23:13:50.298][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2024-07-17 23:13:50.300][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2024-07-17 23:13:50.301][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2024-07-17 23:13:50.302][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2024-07-17 23:13:50.304][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2024-07-17 23:13:50.305][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2024-07-17 23:13:50.306][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2024-07-17 23:13:50.307][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2024-07-17 23:13:50.308][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2024-07-17 23:13:50.309][FUN] Functions in observer 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 386 ]
> 
> proc.time()
   user  system elapsed 
  23.50    2.04   75.65

Example timings

biodbChebi.Rcheck/biodbChebi-Ex.timings

name	user	system	elapsed
ChebiConn	4.31	2.64	147.91
ChebiEntry	0.63	0.02	0.66