Pierrick Roger
| Snapshot Date: 2025-03-06 13:00 -0500 (Thu, 06 Mar 2025) |
| git_url: https://git.bioconductor.org/packages/biodbChebi |
| git_branch: RELEASE_3_20 |
| git_last_commit: e6b963e |
| git_last_commit_date: 2024-10-29 11:04:35 -0500 (Tue, 29 Oct 2024) |
| Back to Multiple platform build/check report for BioC 3.20: simplified long |
|
This page was generated on 2025-03-10 12:06 -0400 (Mon, 10 Mar 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | 4.4.3 (2025-02-28) -- "Trophy Case" | 4670 |
| palomino8 | Windows Server 2022 Datacenter | x64 | 4.4.3 (2025-02-28 ucrt) -- "Trophy Case" | 4355 |
| merida1 | macOS 12.7.5 Monterey | x86_64 | 4.4.3 (2025-02-28) -- "Trophy Case" | 4446 |
| kjohnson1 | macOS 13.6.6 Ventura | arm64 | 4.4.3 (2025-02-28) -- "Trophy Case" | 4439 |
| taishan | Linux (openEuler 24.03 LTS) | aarch64 | 4.4.3 (2025-02-28) -- "Trophy Case" | 4306 |
| Click on any hostname to see more info about the system (e.g. compilers) (*) as reported by 'uname -p', except on Windows and Mac OS X | ||||
| Package 202/2289 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| biodbChebi 1.12.0 (landing page) Pierrick Roger
| nebbiolo2 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | OK | | ||||||||
| palomino8 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | | ||||||||
| merida1 | macOS 12.7.5 Monterey / x86_64 | OK | OK | OK | OK | | ||||||||
| kjohnson1 | macOS 13.6.6 Ventura / arm64 | OK | OK | OK | OK | | ||||||||
| taishan | Linux (openEuler 24.03 LTS) / aarch64 | OK | OK | OK | ||||||||||
|
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. |
| Package: biodbChebi |
| Version: 1.12.0 |
| 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_1.12.0.tar.gz |
| StartedAt: 2025-03-06 23:41:07 -0500 (Thu, 06 Mar 2025) |
| EndedAt: 2025-03-06 23:46:15 -0500 (Thu, 06 Mar 2025) |
| EllapsedTime: 308.8 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: biodbChebi.Rcheck |
| Warnings: 0 |
##############################################################################
##############################################################################
###
### 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_1.12.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory 'F:/biocbuild/bbs-3.20-bioc/meat/biodbChebi.Rcheck'
* using R version 4.4.3 (2025-02-28 ucrt)
* using platform: x86_64-w64-mingw32
* R was compiled by
gcc.exe (GCC) 13.3.0
GNU Fortran (GCC) 13.3.0
* 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 '1.12.0'
* 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 3.52 2.29 85.86
* 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
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)
biodbChebi.Rcheck/tests/testthat.Rout
R version 4.4.3 (2025-02-28 ucrt) -- "Trophy Case"
Copyright (C) 2025 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 [2025-03-06 23:44:52.853][biodb::testContext]
biodb.INFO [2025-03-06 23:44:52.857][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-06 23:44:52.858][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-03-06 23:44:52.860][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-06 23:44:52.861][biodb::testContext]
biodb.INFO [2025-03-06 23:44:52.869][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2025-03-06 23:44:52.872][self$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.20-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2025-03-06 23:44:52.893][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-06 23:44:52.895][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-03-06 23:44:52.896][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-03-06 23:44:52.897][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:44:52.898][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:44:52.899][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:44:52.900][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-03-06 23:44:52.916][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-03-06 23:44:52.917][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:44:52.918][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:44:52.919][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:44:52.921][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-03-06 23:44:52.922][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-03-06 23:44:52.923][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:44:52.924][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:44:52.925][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:44:52.926][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-03-06 23:44:52.927][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-03-06 23:44:52.929][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-03-06 23:44:52.930][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:44:52.931][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:44:52.932][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:44:52.933][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-03-06 23:44:52.934][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-03-06 23:44:52.936][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-03-06 23:44:52.937][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:44:52.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:44:52.939][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:44:52.940][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-03-06 23:44:52.941][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-03-06 23:44:52.942][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:44:52.943][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:44:52.944][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:44:52.946][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-03-06 23:44:52.947][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-03-06 23:44:52.948][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-03-06 23:44:52.949][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:44:52.950][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:44:52.951][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:44:52.952][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-03-06 23:44:52.954][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-03-06 23:44:52.955][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:44:52.956][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:44:52.957][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:44:52.958][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-03-06 23:44:52.959][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-03-06 23:44:52.960][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-03-06 23:44:52.961][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:44:52.962][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:44:52.963][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:44:52.965][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-03-06 23:44:52.966][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-03-06 23:44:52.967][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-03-06 23:44:52.968][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-03-06 23:44:52.969][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-03-06 23:44:52.971][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-03-06 23:44:52.972][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:44:52.973][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:44:52.974][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.DEBUG[2025-03-06 23:44:52.975][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-03-06 23:44:52.976][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-03-06 23:44:52.977][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:44:52.978][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:44:52.979][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:44:52.981][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-03-06 23:44:52.982][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-03-06 23:44:52.983][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:44:52.984][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:44:52.985][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:44:52.986][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-03-06 23:44:52.988][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-03-06 23:44:52.989][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:44:52.990][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:44:52.991][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:44:52.992][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-03-06 23:44:52.993][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-03-06 23:44:52.994][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:44:52.995][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:44:52.996][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:44:52.997][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-03-06 23:44:52.999][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-03-06 23:44:53.000][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:44:53.001][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:44:53.002][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:44:53.003][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-03-06 23:44:53.004][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-03-06 23:44:53.008][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-03-06 23:44:53.009][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:44:53.010][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:44:53.011][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:44:53.012][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-03-06 23:44:53.013][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-03-06 23:44:53.015][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-03-06 23:44:53.016][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:44:53.017][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:44:53.018][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:44:53.021][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-03-06 23:44:53.048][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-06 23:44:53.062][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-03-06 23:44:53.069][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-06 23:44:53.070][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-06 23:44:53.071][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-06 23:44:53.073][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-06 23:44:53.074][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-06 23:44:53.075][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-06 23:44:53.076][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-06 23:44:53.077][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-06 23:44:53.079][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-06 23:44:53.080][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-03-06 23:44:53.081][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-06 23:44:53.083][self$setPropertyValue]
biodb.DEBUG[2025-03-06 23:44:53.085][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-06 23:44:53.087][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-06 23:44:53.087][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-06 23:44:53.087][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-06 23:44:53.087][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-06 23:44:53.087][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-06 23:44:53.089][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-06 23:44:53.091][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 23:44:53.093][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 23:44:53.095][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-06 23:44:53.097][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 23:44:53.098][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 23:44:53.100][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-06 23:44:53.102][self$setPropertyValue]
biodb.DEBUG[2025-03-06 23:44:53.104][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-06 23:44:53.105][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-06 23:44:53.107][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-06 23:44:53.109][self$setPropertyValue]
biodb.DEBUG[2025-03-06 23:44:53.111][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-03-06 23:44:53.114][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-06 23:44:53.116][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-03-06 23:44:53.118][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-06 23:44:53.120][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-06 23:44:53.122][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-06 23:44:53.124][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-06 23:44:53.126][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-06 23:44:53.128][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-06 23:44:53.130][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-06 23:44:53.132][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-06 23:44:53.134][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-06 23:44:53.136][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-03-06 23:44:53.137][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-06 23:44:53.139][self$setPropertyValue]
biodb.DEBUG[2025-03-06 23:44:53.141][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-06 23:44:53.143][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-06 23:44:53.143][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-06 23:44:53.143][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-06 23:44:53.143][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-06 23:44:53.143][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-06 23:44:53.145][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-06 23:44:53.147][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 23:44:53.149][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 23:44:53.151][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-06 23:44:53.153][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 23:44:53.154][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 23:44:53.156][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-06 23:44:53.158][self$setPropertyValue]
biodb.DEBUG[2025-03-06 23:44:53.160][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-06 23:44:53.162][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-06 23:44:53.164][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-06 23:44:53.166][self$setPropertyValue]
biodb.DEBUG[2025-03-06 23:44:53.168][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-03-06 23:44:53.171][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-06 23:44:53.173][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-03-06 23:44:53.175][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-06 23:44:53.177][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-06 23:44:53.179][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-06 23:44:53.181][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-06 23:44:53.184][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-06 23:44:53.185][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-06 23:44:53.186][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-06 23:44:53.187][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-06 23:44:53.188][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-06 23:44:53.190][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-03-06 23:44:53.191][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-06 23:44:53.192][self$setPropertyValue]
biodb.DEBUG[2025-03-06 23:44:53.193][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-06 23:44:53.194][self$setPropertyValue]
biodb.DEBUG[2025-03-06 23:44:53.196][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-06 23:44:53.197][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 23:44:53.198][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 23:44:53.199][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-06 23:44:53.200][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 23:44:53.201][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 23:44:53.202][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-06 23:44:53.204][self$setPropertyValue]
biodb.DEBUG[2025-03-06 23:44:53.205][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-06 23:44:53.206][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-06 23:44:53.207][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-06 23:44:53.208][self$setPropertyValue]
biodb.DEBUG[2025-03-06 23:44:53.209][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-03-06 23:44:53.211][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-06 23:44:53.213][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-03-06 23:44:53.214][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-06 23:44:53.215][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-06 23:44:53.216][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-06 23:44:53.217][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-06 23:44:53.218][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-06 23:44:53.220][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-06 23:44:53.221][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-06 23:44:53.222][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-06 23:44:53.223][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-06 23:44:53.224][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-03-06 23:44:53.226][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-06 23:44:53.227][self$setPropertyValue]
biodb.DEBUG[2025-03-06 23:44:53.228][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-06 23:44:53.229][self$setPropertyValue]
biodb.DEBUG[2025-03-06 23:44:53.230][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-06 23:44:53.231][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 23:44:53.232][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 23:44:53.234][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-06 23:44:53.235][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 23:44:53.236][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 23:44:53.237][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-06 23:44:53.239][self$setPropertyValue]
biodb.DEBUG[2025-03-06 23:44:53.240][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-06 23:44:53.241][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-06 23:44:53.242][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-06 23:44:53.243][self$setPropertyValue]
biodb.DEBUG[2025-03-06 23:44:53.247][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-06 23:44:53.248][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:44:53.249][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:44:53.250][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:44:53.251][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:44:53.252][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:44:53.253][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:44:53.255][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:44:53.256][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:44:53.257][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:44:53.258][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:44:53.259][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:44:53.260][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:44:53.261][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:44:53.262][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:44:53.263][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:44:53.264][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:44:53.265][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:44:53.266][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:44:53.267][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:44:53.268][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:44:53.269][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:44:53.271][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:44:53.272][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:44:53.273][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:44:53.274][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:44:53.275][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:44:53.276][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:44:53.277][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:44:53.278][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:44:53.279][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:44:53.280][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:44:53.281][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:44:53.282][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:44:53.283][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:44:53.285][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:44:53.286][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:44:53.287][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:44:53.288][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:44:53.289][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:44:53.290][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:44:53.291][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:44:53.292][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:44:53.293][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:44:53.294][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:44:53.295][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:44:53.296][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:44:53.297][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:44:53.298][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:44:53.299][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:44:53.301][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:44:53.302][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:44:53.303][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:44:53.304][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:44:53.305][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:44:53.306][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:44:53.307][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:44:53.308][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:44:53.309][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:44:53.310][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:44:53.311][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:44:53.317][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:44:53.318][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:44:53.319][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:44:53.320][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:44:53.322][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:44:53.323][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:44:53.324][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:44:53.325][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:44:53.326][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:44:53.327][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:44:53.328][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:44:53.329][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[2025-03-06 23:44:53.330][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:44:53.331][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:44:53.332][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:44:53.334][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:44:53.335][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:44:53.336][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:44:53.337][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:44:53.338][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:44:53.339][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:44:53.340][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.DEBUG[2025-03-06 23:44:53.341][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:44:53.342][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:44:53.343][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:44:53.344][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:44:53.345][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:44:53.346][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-03-06 23:44:53.351][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-03-06 23:44:53.352][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-03-06 23:44:53.354][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-03-06 23:44:53.356][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-03-06 23:44:53.357][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-03-06 23:44:53.359][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-03-06 23:44:53.360][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-03-06 23:44:53.362][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-03-06 23:44:53.363][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-03-06 23:44:53.365][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-06 23:44:53.367][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-03-06 23:44:53.368][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-03-06 23:44:53.370][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-03-06 23:44:53.371][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-03-06 23:44:53.373][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-03-06 23:44:53.374][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-03-06 23:44:53.376][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-03-06 23:44:53.377][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-03-06 23:44:53.379][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-03-06 23:44:53.381][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-03-06 23:44:53.382][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-03-06 23:44:53.384][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-03-06 23:44:53.385][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-03-06 23:44:53.387][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-03-06 23:44:53.388][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-03-06 23:44:53.390][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-03-06 23:44:53.391][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-03-06 23:44:53.393][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-03-06 23:44:53.394][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-03-06 23:44:53.396][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-03-06 23:44:53.398][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-03-06 23:44:53.399][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-03-06 23:44:53.401][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-03-06 23:44:53.402][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-03-06 23:44:53.404][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-03-06 23:44:53.405][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-03-06 23:44:53.407][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-03-06 23:44:53.408][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-03-06 23:44:53.410][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-03-06 23:44:53.411][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-03-06 23:44:53.413][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-03-06 23:44:53.415][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-03-06 23:44:53.416][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-03-06 23:44:53.418][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-03-06 23:44:53.419][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-03-06 23:44:53.421][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-03-06 23:44:53.422][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-03-06 23:44:53.424][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-03-06 23:44:53.425][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-03-06 23:44:53.427][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-03-06 23:44:53.428][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-03-06 23:44:53.430][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-03-06 23:44:53.431][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-03-06 23:44:53.433][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-03-06 23:44:53.434][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-03-06 23:44:53.436][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-03-06 23:44:53.438][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-03-06 23:44:53.439][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-03-06 23:44:53.441][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-03-06 23:44:53.444][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-03-06 23:44:53.446][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-03-06 23:44:53.449][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-03-06 23:44:53.451][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-03-06 23:44:53.454][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-03-06 23:44:53.456][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-03-06 23:44:53.458][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-03-06 23:44:53.460][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-03-06 23:44:53.462][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-03-06 23:44:53.463][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-03-06 23:44:53.465][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-03-06 23:44:53.467][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-03-06 23:44:53.468][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-03-06 23:44:53.470][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-03-06 23:44:53.471][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-03-06 23:44:53.473][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-03-06 23:44:53.475][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-03-06 23:44:53.476][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-03-06 23:44:53.478][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-03-06 23:44:53.479][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-03-06 23:44:53.481][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-03-06 23:44:53.483][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-03-06 23:44:53.484][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-03-06 23:44:53.523][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-03-06 23:44:53.526][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2025-03-06 23:44:53.529][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-06 23:44:53.530][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:44:53.531][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:44:53.532][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:44:53.533][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:44:53.537][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:44:53.539][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:44:53.540][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:44:53.541][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:44:53.542][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:44:53.548][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:44:53.550][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[2025-03-06 23:44:53.551][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:44:53.552][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:44:53.553][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:44:53.554][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:44:53.555][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:44:53.556][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:44:53.557][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:44:53.558][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:44:53.559][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:44:53.560][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:44:53.561][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:44:53.562][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:44:53.564][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:44:53.565][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:44:53.566][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:44:53.567][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:44:53.568][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:44:53.569][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:44:53.570][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:44:53.571][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:44:53.572][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:44:53.573][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:44:53.574][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:44:53.575][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:44:53.576][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:44:53.577][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:44:53.578][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:44:53.580][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:44:53.581][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:44:53.582][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:44:53.583][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:44:53.584][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:44:53.585][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:44:53.586][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:44:53.587][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[2025-03-06 23:44:53.588][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:44:53.589][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:44:53.591][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:44:53.592][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:44:53.593][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:44:53.594][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:44:53.595][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:44:53.596][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:44:53.598][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:44:53.600][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:44:53.601][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:44:53.603][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:44:53.605][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:44:53.606][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:44:53.607][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:44:53.608][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:44:53.609][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:44:53.610][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:44:53.611][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:44:53.612][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:44:53.613][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[2025-03-06 23:44:53.615][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:44:53.616][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:44:53.617][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:44:53.618][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:44:53.619][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:44:53.620][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:44:53.621][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:44:53.622][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:44:53.623][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:44:53.624][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:44:53.625][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:44:53.626][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:44:53.628][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:44:53.629][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[2025-03-06 23:44:53.630][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:44:53.631][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:44:53.632][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:44:53.633][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:44:53.634][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:44:53.635][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:44:53.636][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:44:53.638][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:44:53.639][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:44:53.640][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:44:53.641][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:44:53.642][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:44:53.643][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:44:53.644][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:44:53.645][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:44:53.646][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:44:53.647][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:44:53.648][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:44:53.650][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:44:53.651][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:44:53.652][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:44:53.653][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:44:53.654][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:44:53.655][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:44:53.656][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:44:53.657][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:44:53.658][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:44:53.659][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[2025-03-06 23:44:53.660][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:44:53.662][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:44:53.663][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:44:53.664][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:44:53.665][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:44:53.666][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:44:53.667][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:44:53.668][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:44:53.669][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:44:53.670][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:44:53.671][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:44:53.672][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:44:53.673][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:44:53.674][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[2025-03-06 23:44:53.677][biodb$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.20-bioc/R/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-03-06 23:44:53.686][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-03-06 23:44:53.688][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-06 23:44:53.690][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-03-06 23:44:53.691][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-06 23:44:53.692][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-06 23:44:53.693][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-06 23:44:53.694][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-06 23:44:53.696][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-03-06 23:44:53.697][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-03-06 23:44:53.698][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-03-06 23:44:53.699][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-06 23:44:53.700][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-06 23:44:53.702][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-03-06 23:44:53.703][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-06 23:44:53.704][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-03-06 23:44:53.704][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-03-06 23:44:53.704][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-03-06 23:44:53.704][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-03-06 23:44:53.704][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-03-06 23:44:53.704][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-03-06 23:44:53.704][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-03-06 23:44:53.704][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-03-06 23:44:53.704][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-03-06 23:44:53.704][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-03-06 23:44:53.704][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-03-06 23:44:53.706][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-03-06 23:44:53.707][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-06 23:44:53.707][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-06 23:44:53.707][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-06 23:44:53.708][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-03-06 23:44:53.709][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 23:44:53.710][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 23:44:53.712][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-06 23:44:53.713][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 23:44:53.714][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 23:44:53.715][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-06 23:44:53.716][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-03-06 23:44:53.716][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-03-06 23:44:53.717][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-06 23:44:53.718][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-06 23:44:53.720][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-03-06 23:44:53.721][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-03-06 23:44:53.721][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-03-06 23:44:53.726][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-03-06 23:44:53.728][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-06 23:44:53.730][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-03-06 23:44:53.732][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-03-06 23:44:53.733][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-03-06 23:44:53.735][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-03-06 23:44:53.761][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-03-06 23:44:53.763][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-03-06 23:44:53.766][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-03-06 23:44:53.770][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-03-06 23:44:53.774][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-06 23:44:53.775][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-06 23:44:53.777][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-03-06 23:44:53.778][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-03-06 23:44:53.788][biodb::testThat]
biodb.INFO [2025-03-06 23:44:53.790][biodb::testThat] Running test function test.entry.fields (" Entry fields have a correct value ").
biodb.INFO [2025-03-06 23:44:53.791][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-06 23:44:53.792][biodb::testThat]
biodb.TRACE[2025-03-06 23:44:53.839][loadFileContents] Loaded 1 files from cache: [1]: "F:/biocbuild/bbs-3.20-bioc/R/library/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2025-03-06 23:44:53.842][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-06 23:44:53.845][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-06 23:44:53.852][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:44:53.853][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:44:53.855][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:44:53.883][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:44:53.884][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:44:53.886][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:44:53.887][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:44:53.895][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:44:53.897][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:44:53.898][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:53.899][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:53.901][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:44:53.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:44:53.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:53.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:53.916][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 23:44:53.918][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 23:44:53.919][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:53.920][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:53.945][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 23:44:53.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 23:44:53.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:53.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:53.952][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 23:44:53.954][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 23:44:53.955][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:53.956][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:53.957][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 23:44:53.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 23:44:53.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:53.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:53.962][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 23:44:53.964][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 23:44:53.965][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:53.966][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:53.967][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 23:44:53.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 23:44:53.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:53.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:53.972][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 23:44:53.974][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 23:44:53.975][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:53.976][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:53.977][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 23:44:53.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 23:44:53.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:53.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:53.982][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:44:53.984][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:44:53.985][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:53.986][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:53.987][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:44:53.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:44:53.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:53.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:53.992][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 23:44:54.045][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:44:54.047][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.049][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.051][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 23:44:54.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:44:54.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.056][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:44:54.057][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:44:54.059][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.060][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.061][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:44:54.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:44:54.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.066][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-06 23:44:54.068][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 23:44:54.069][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.070][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.072][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 23:44:54.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 23:44:54.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.077][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 23:44:54.078][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 23:44:54.079][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.080][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.082][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 23:44:54.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 23:44:54.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.087][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 23:44:54.088][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 23:44:54.089][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.090][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.092][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 23:44:54.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 23:44:54.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.097][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:44:54.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:44:54.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.102][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:44:54.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:44:54.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.107][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:44:54.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:44:54.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.112][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:44:54.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:44:54.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.116][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:44:54.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:44:54.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.121][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:44:54.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:44:54.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.126][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:44:54.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:44:54.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.166][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:44:54.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:44:54.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.171][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:44:54.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:44:54.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.176][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:44:54.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:44:54.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:44:54.184][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2025-03-06 23:44:54.189][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 23:44:54.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 23:44:54.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.198][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 23:44:54.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 23:44:54.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.240][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 23:44:54.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 23:44:54.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.245][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 23:44:54.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 23:44:54.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.250][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:44:54.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:44:54.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.255][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:44:54.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:44:54.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.260][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-03-06 23:44:54.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-03-06 23:44:54.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.264][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-03-06 23:44:54.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-03-06 23:44:54.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.269][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-03-06 23:44:54.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-03-06 23:44:54.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.274][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-03-06 23:44:54.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-03-06 23:44:54.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.305][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:44:54.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:44:54.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.328][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:44:54.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:44:54.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.339][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:44:54.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:44:54.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.344][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:44:54.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:44:54.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.349][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:44:54.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:44:54.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.355][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:44:54.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:44:54.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.360][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:44:54.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:44:54.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.365][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:44:54.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:44:54.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.370][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:44:54.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:44:54.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.375][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:44:54.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:44:54.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.379][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:44:54.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:44:54.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.411][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:44:54.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:44:54.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.417][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:44:54.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:44:54.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.422][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:44:54.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:44:54.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.427][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:44:54.428][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:44:54.429][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.430][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.431][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:44:54.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:44:54.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.446][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:44:54.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:44:54.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.451][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:44:54.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:44:54.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.456][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:44:54.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:44:54.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.462][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:44:54.464][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:44:54.465][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.466][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.467][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:44:54.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:44:54.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.487][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 23:44:54.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 23:44:54.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.495][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 23:44:54.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 23:44:54.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.504][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 23:44:54.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 23:44:54.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.512][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-06 23:44:54.514][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 23:44:54.516][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.518][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.520][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 23:44:54.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 23:44:54.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.542][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 23:44:54.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 23:44:54.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.547][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 23:44:54.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 23:44:54.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.552][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 23:44:54.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 23:44:54.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.557][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 23:44:54.558][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 23:44:54.559][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.560][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.561][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 23:44:54.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 23:44:54.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.657][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:44:54.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:44:54.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.663][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:44:54.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:44:54.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.672][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:44:54.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:44:54.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.680][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:44:54.682][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:44:54.684][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.686][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.697][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:44:54.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:44:54.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.721][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:44:54.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:44:54.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.726][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:44:54.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:44:54.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.731][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:44:54.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:44:54.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.736][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:44:54.737][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:44:54.738][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.740][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.741][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:44:54.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:44:54.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.760][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 23:44:54.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 23:44:54.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.766][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 23:44:54.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 23:44:54.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.770][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 23:44:54.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 23:44:54.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.778][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 23:44:54.780][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 23:44:54.781][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.782][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.784][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 23:44:54.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 23:44:54.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.819][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-03-06 23:44:54.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 23:44:54.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.824][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-03-06 23:44:54.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 23:44:54.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.829][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-03-06 23:44:54.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 23:44:54.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.834][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-03-06 23:44:54.835][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 23:44:54.836][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.838][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.839][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-03-06 23:44:54.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 23:44:54.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.856][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:44:54.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:44:54.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.861][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:44:54.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:44:54.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.867][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:44:54.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:44:54.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.876][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:44:54.878][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:44:54.880][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.881][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.882][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:44:54.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:44:54.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.903][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 23:44:54.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 23:44:54.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.909][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 23:44:54.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 23:44:54.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.914][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 23:44:54.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 23:44:54.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.923][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 23:44:54.925][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 23:44:54.926][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.927][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.928][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 23:44:54.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 23:44:54.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.948][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 23:44:54.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 23:44:54.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.953][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 23:44:54.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 23:44:54.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.958][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 23:44:54.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 23:44:54.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.963][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 23:44:54.965][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 23:44:54.966][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.967][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.968][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 23:44:54.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 23:44:54.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.988][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 23:44:54.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 23:44:54.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.993][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 23:44:54.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 23:44:54.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:54.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:54.998][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 23:44:55.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 23:44:55.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:55.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:55.003][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 23:44:55.004][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 23:44:55.005][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:55.007][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:55.008][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 23:44:55.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 23:44:55.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:55.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:55.022][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:44:55.024][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:44:55.025][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:55.026][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:55.044][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 23:44:55.045][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 23:44:55.047][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:55.048][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:55.054][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 23:44:55.056][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 23:44:55.057][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:55.058][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:55.064][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 23:44:55.066][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 23:44:55.067][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:55.068][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:55.079][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 23:44:55.081][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 23:44:55.082][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:55.083][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:55.093][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:44:55.095][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:44:55.096][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:55.097][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:55.106][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:44:55.108][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:44:55.109][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:55.110][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:55.121][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:44:55.122][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:44:55.123][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:55.124][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:55.136][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-03-06 23:44:55.138][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 23:44:55.139][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:55.140][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:55.152][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-06 23:44:55.153][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 23:44:55.154][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:55.155][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:55.162][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 23:44:55.163][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 23:44:55.165][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:55.166][ef$get] fields variable is a list.
biodb.INFO [2025-03-06 23:44:55.187][biodb::testThat]
biodb.INFO [2025-03-06 23:44:55.188][biodb::testThat] Running test function test.rt.unit (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-03-06 23:44:55.190][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-06 23:44:55.191][biodb::testThat]
biodb.DEBUG[2025-03-06 23:44:55.204][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2025-03-06 23:44:55.211][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-06 23:44:55.218][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15440".
biodb.TRACE[2025-03-06 23:44:55.219][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 23:44:55.222][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml".
biodb.DEBUG[2025-03-06 23:44:55.223][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-06 23:44:55.244][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-06 23:44:55.246][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-06 23:44:55.248][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:44:55.249][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:44:55.251][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:44:55.258][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:44:55.259][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:44:55.260][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:44:55.261][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:44:55.264][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:44:55.266][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:44:55.267][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:55.268][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:55.270][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:44:55.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:44:55.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:55.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:55.296][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 23:44:55.298][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 23:44:55.299][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:55.300][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:55.302][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 23:44:55.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 23:44:55.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:55.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:55.313][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 23:44:55.314][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 23:44:55.315][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:55.317][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:55.318][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 23:44:55.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 23:44:55.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:55.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:55.323][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 23:44:55.325][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 23:44:55.326][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:55.327][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:55.329][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 23:44:55.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 23:44:55.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:55.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:55.334][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 23:44:55.335][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 23:44:55.336][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:55.338][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:55.339][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 23:44:55.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 23:44:55.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:55.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:55.344][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:44:55.345][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:44:55.347][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:55.348][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:55.349][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:44:55.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:44:55.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:55.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:55.354][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 23:44:55.356][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:44:55.357][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:55.358][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:55.360][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 23:44:55.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:44:55.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:55.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:55.365][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:44:55.366][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:44:55.367][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:55.369][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:55.370][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:44:55.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:44:55.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:55.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:55.375][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-06 23:44:55.377][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 23:44:55.378][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:55.379][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:55.381][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 23:44:55.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 23:44:55.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:55.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:55.386][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 23:44:55.387][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 23:44:55.389][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:55.390][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:55.391][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 23:44:55.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 23:44:55.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:55.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:55.396][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 23:44:55.398][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 23:44:55.399][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:55.400][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:55.402][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 23:44:55.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 23:44:55.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:55.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:55.407][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:44:55.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:44:55.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:55.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:55.412][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:44:55.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:44:55.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:55.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:55.417][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:44:55.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:44:55.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:55.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:55.422][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:44:55.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:44:55.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:55.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:55.427][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:44:55.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:44:55.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:55.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:55.432][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:44:55.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:44:55.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:55.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:55.437][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:44:55.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:44:55.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:55.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:55.442][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:44:55.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:44:55.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:55.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:55.448][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:44:55.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:44:55.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:55.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:55.455][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:44:55.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:44:55.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:55.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:44:55.460][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2025-03-06 23:44:55.461][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-03-06 23:44:55.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-03-06 23:44:55.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:55.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:55.466][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-03-06 23:44:55.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-03-06 23:44:55.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:55.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:55.471][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-03-06 23:44:55.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-03-06 23:44:55.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:55.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-03-06 23:44:55.505][biodb::testThat]
biodb.INFO [2025-03-06 23:44:55.506][biodb::testThat] Running test function test.searchForEntries (" We can search for an entry by searchable field ").
biodb.INFO [2025-03-06 23:44:55.508][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-06 23:44:55.509][biodb::testThat]
biodb.TRACE[2025-03-06 23:44:55.513][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-06 23:44:55.514][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 23:44:55.515][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:55.516][ef$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:44:55.518][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2025-03-06 23:44:55.556][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 23:44:55.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 23:44:55.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:55.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:55.561][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 23:44:55.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 23:44:55.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:55.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:55.566][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 23:44:55.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 23:44:55.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:55.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:44:55.573][function(conn, opt)] With value "squalene".
biodb.DEBUG[2025-03-06 23:44:55.578][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-03-06 23:44:55.596][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-06 23:44:55.610][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2025-03-06 23:44:55.612][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 23:44:55.614][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2025-03-06 23:44:55.641][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[2025-03-06 23:44:55.646][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-03-06 23:44:55.648][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-03-06 23:44:55.650][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL%20NAMES&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-03-06 23:44:56.320][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL%20NAMES&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-03-06 23:44:56.873][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-03-06 23:44:56.876][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content"
biodb.TRACE[2025-03-06 23:44:56.897][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.request"
biodb.DEBUG[2025-03-06 23:44:56.902][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2025-03-06 23:44:56.944][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:44:56.946][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:44:56.947][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:56.948][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:56.949][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:44:56.951][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:44:56.952][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:56.953][ef$get] fields variable is a list.
biodb.INFO [2025-03-06 23:44:56.966][biodb::testThat]
biodb.INFO [2025-03-06 23:44:56.967][biodb::testThat] Running test function test.searchByName (" We can search for an entry by name. ").
biodb.INFO [2025-03-06 23:44:56.968][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-06 23:44:56.969][biodb::testThat]
biodb.TRACE[2025-03-06 23:44:57.012][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 23:44:57.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 23:44:57.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:57.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:57.019][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 23:44:57.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 23:44:57.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:57.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:57.024][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 23:44:57.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 23:44:57.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:57.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:44:57.090][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-03-06 23:44:57.094][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-06 23:44:57.096][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-03-06 23:44:57.097][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 23:44:57.104][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.INFO [2025-03-06 23:44:57.132][biodb::testThat]
biodb.INFO [2025-03-06 23:44:57.133][biodb::testThat] Running test function testEntryLoading (" We can load an entry from the database. ").
biodb.INFO [2025-03-06 23:44:57.134][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-06 23:44:57.136][biodb::testThat]
biodb.TRACE[2025-03-06 23:44:57.172][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 23:44:57.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 23:44:57.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:57.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:57.178][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 23:44:57.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 23:44:57.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:57.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:57.183][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 23:44:57.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 23:44:57.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:57.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:57.188][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 23:44:57.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 23:44:57.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:57.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:57.193][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:44:57.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:44:57.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:57.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:57.197][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:44:57.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:44:57.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:57.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:57.202][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-03-06 23:44:57.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-03-06 23:44:57.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:57.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:57.207][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-03-06 23:44:57.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-03-06 23:44:57.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:57.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:57.212][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-03-06 23:44:57.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-03-06 23:44:57.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:57.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:57.217][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-03-06 23:44:57.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-03-06 23:44:57.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:57.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:57.237][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 23:44:57.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 23:44:57.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:57.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:57.242][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 23:44:57.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 23:44:57.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:57.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:57.247][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 23:44:57.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 23:44:57.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:57.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:57.252][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 23:44:57.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 23:44:57.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:57.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:57.257][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:44:57.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:44:57.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:57.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:57.266][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:44:57.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:44:57.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:57.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:57.271][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-03-06 23:44:57.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-03-06 23:44:57.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:57.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:57.277][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-03-06 23:44:57.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-03-06 23:44:57.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:57.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:57.285][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-03-06 23:44:57.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-03-06 23:44:57.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:57.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:57.293][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-03-06 23:44:57.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-03-06 23:44:57.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:57.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-03-06 23:44:57.389][biodb::testThat]
biodb.INFO [2025-03-06 23:44:57.391][biodb::testThat] Running test function test.entry.page.url (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-03-06 23:44:57.393][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-06 23:44:57.395][biodb::testThat]
biodb.INFO [2025-03-06 23:44:57.416][biodb::testThat]
biodb.INFO [2025-03-06 23:44:57.417][biodb::testThat] Running test function test.entry.image.url (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-03-06 23:44:57.419][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-06 23:44:57.420][biodb::testThat]
biodb.INFO [2025-03-06 23:44:57.438][biodb::testThat]
biodb.INFO [2025-03-06 23:44:57.440][biodb::testThat] Running test function test.entry.page.url.download (" The entry page URL can be downloaded. ").
biodb.INFO [2025-03-06 23:44:57.441][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-06 23:44:57.442][biodb::testThat]
biodb.DEBUG[2025-03-06 23:44:57.448][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
biodb.DEBUG[2025-03-06 23:44:57.971][getUrlContent] Use RCurl for downloading content of URL https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440.
biodb.INFO [2025-03-06 23:44:58.855][biodb::testThat]
biodb.INFO [2025-03-06 23:44:58.856][biodb::testThat] Running test function test.entry.image.url.download (" The entry image URL can be downloaded. ").
biodb.INFO [2025-03-06 23:44:58.857][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-06 23:44:58.859][biodb::testThat]
biodb.DEBUG[2025-03-06 23:44:59.219][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[2025-03-06 23:44:59.587][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-06 23:44:59.589][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 23:44:59.590][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:59.591][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:59.592][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:44:59.594][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:44:59.595][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:59.596][ef$get] fields variable is a list.
biodb.INFO [2025-03-06 23:44:59.598][biodb::testThat]
biodb.INFO [2025-03-06 23:44:59.600][biodb::testThat] Running test function test.searchCompound (" We can search for a compound ").
biodb.INFO [2025-03-06 23:44:59.601][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-06 23:44:59.602][biodb::testThat]
biodb.TRACE[2025-03-06 23:44:59.650][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 23:44:59.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 23:44:59.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:59.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:59.656][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 23:44:59.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 23:44:59.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:59.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:59.661][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 23:44:59.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 23:44:59.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:59.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:44:59.754][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-03-06 23:44:59.764][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-06 23:44:59.766][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-03-06 23:44:59.768][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 23:44:59.770][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-03-06 23:44:59.831][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-03-06 23:44:59.834][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-06 23:44:59.836][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-03-06 23:44:59.838][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 23:44:59.840][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.TRACE[2025-03-06 23:44:59.919][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-06 23:44:59.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-06 23:44:59.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:59.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:59.937][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:44:59.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:44:59.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:59.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:59.946][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:44:59.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:44:59.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:59.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:59.953][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:44:59.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:44:59.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:59.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:59.961][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:44:59.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:44:59.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:59.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:44:59.968][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:44:59.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:44:59.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:44:59.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:44:59.986][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-03-06 23:45:00.011][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-03-06 23:45:00.012][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-03-06 23:45:00.026][private$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[2025-03-06 23:45:00.335][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[2025-03-06 23:45:00.657][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-03-06 23:45:00.663][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content"
biodb.TRACE[2025-03-06 23:45:00.668][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.request"
biodb.DEBUG[2025-03-06 23:45:00.672][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:00.673][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:00.675][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:00.686][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:00.687][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:00.688][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:00.690][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[2025-03-06 23:45:00.691][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2025-03-06 23:45:00.746][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-06 23:45:00.749][cch$loadFileContent] Trying to load 1 files from cache: [1]: "192288".
biodb.TRACE[2025-03-06 23:45:00.751][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-03-06 23:45:00.752][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-03-06 23:45:00.754][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-06 23:45:00.755][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-03-06 23:45:00.756][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-03-06 23:45:00.758][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-03-06 23:45:00.768][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:00.769][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:00.770][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:00.782][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:00.783][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:00.784][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:00.785][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:00.787][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=192288".
biodb.DEBUG[2025-03-06 23:45:00.791][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-03-06 23:45:00.792][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-03-06 23:45:00.794][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=192288".
biodb.TRACE[2025-03-06 23:45:01.112][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=192288).
biodb.DEBUG[2025-03-06 23:45:01.424][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-03-06 23:45:01.427][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7e76f7a384ab933ed01801c92c3eec77.content"
biodb.TRACE[2025-03-06 23:45:01.432][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7e76f7a384ab933ed01801c92c3eec77.request"
biodb.TRACE[2025-03-06 23:45:01.436][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml"
biodb.DEBUG[2025-03-06 23:45:01.438][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-03-06 23:45:01.440][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-06 23:45:01.442][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-06 23:45:01.443][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:01.445][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:01.446][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:01.460][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:01.461][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:01.462][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:01.464][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:01.467][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:01.468][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:01.469][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:01.471][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:01.472][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:01.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:01.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:01.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:01.477][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 23:45:01.478][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 23:45:01.480][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:01.481][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:01.482][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 23:45:01.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 23:45:01.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:01.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:01.488][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 23:45:01.489][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 23:45:01.491][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:01.492][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:01.494][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 23:45:01.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 23:45:01.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:01.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:01.499][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 23:45:01.501][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 23:45:01.502][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:01.503][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:01.505][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 23:45:01.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 23:45:01.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:01.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:01.510][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 23:45:01.511][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 23:45:01.513][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:01.514][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:01.515][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 23:45:01.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 23:45:01.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:01.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:01.521][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:45:01.708][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:45:01.709][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:01.710][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:01.712][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 23:45:01.713][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:01.714][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:01.715][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:01.717][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 23:45:01.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:01.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:01.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:01.722][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:01.723][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:01.724][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:01.725][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:01.727][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:01.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:01.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:01.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:01.732][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-06 23:45:01.733][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 23:45:01.734][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:01.735][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:01.737][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 23:45:01.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 23:45:01.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:01.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:01.742][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 23:45:01.743][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 23:45:01.744][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:01.746][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:01.747][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 23:45:01.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 23:45:01.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:01.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:01.752][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 23:45:01.753][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 23:45:01.754][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:01.755][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:01.757][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 23:45:01.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 23:45:01.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:01.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:01.762][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:01.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:01.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:01.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:01.767][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:01.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:01.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:01.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:01.772][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:01.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:01.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:01.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:01.777][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:01.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:01.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:01.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:01.782][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:01.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:01.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:01.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:01.787][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:01.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:01.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:01.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:01.792][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:01.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:01.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:01.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:01.797][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:01.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:01.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:01.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:01.802][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:01.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:01.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:01.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:01.807][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:01.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:01.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:01.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:01.812][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2025-03-06 23:45:01.821][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:01.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:01.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:01.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:01.826][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:01.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:01.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:01.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:01.832][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:01.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:01.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:01.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:01.838][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[2025-03-06 23:45:01.843][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-03-06 23:45:01.844][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-03-06 23:45:01.847][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-03-06 23:45:02.152][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-03-06 23:45:02.468][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-03-06 23:45:02.472][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content"
biodb.TRACE[2025-03-06 23:45:02.479][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.request"
biodb.DEBUG[2025-03-06 23:45:02.500][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:02.501][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:02.503][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:02.525][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:02.526][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:02.528][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:02.529][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:02.531][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:02.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:02.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:02.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:02.537][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:02.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:02.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:02.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:02.543][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:02.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:02.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:02.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:02.548][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:02.549][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:02.551][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:02.573][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:02.575][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:02.576][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:02.577][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:02.579][private$loadEntries] Creating entries from ids [1]: "209892".
biodb.DEBUG[2025-03-06 23:45:02.581][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-06 23:45:02.583][cch$loadFileContent] Trying to load 1 files from cache: [1]: "209892".
biodb.TRACE[2025-03-06 23:45:02.585][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-03-06 23:45:02.587][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-03-06 23:45:02.588][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-06 23:45:02.590][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-03-06 23:45:02.591][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-03-06 23:45:02.593][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-03-06 23:45:02.609][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:02.610][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:02.611][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:02.619][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:02.621][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:02.622][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:02.623][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:02.625][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=209892".
biodb.DEBUG[2025-03-06 23:45:02.629][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-03-06 23:45:02.631][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-03-06 23:45:02.633][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=209892".
biodb.TRACE[2025-03-06 23:45:02.955][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=209892).
biodb.DEBUG[2025-03-06 23:45:03.261][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-03-06 23:45:03.265][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7a3362365076d47cdf0955cccdd37bcf.content"
biodb.TRACE[2025-03-06 23:45:03.271][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7a3362365076d47cdf0955cccdd37bcf.request"
biodb.TRACE[2025-03-06 23:45:03.275][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/209892.xml"
biodb.DEBUG[2025-03-06 23:45:03.278][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-03-06 23:45:03.280][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-06 23:45:03.281][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-06 23:45:03.284][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:03.285][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:03.286][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:03.311][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:03.313][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:03.314][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:03.315][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:03.318][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:03.320][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:03.321][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:03.323][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:03.324][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:03.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:03.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:03.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:03.330][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 23:45:03.332][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 23:45:03.333][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:03.334][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:03.336][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 23:45:03.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 23:45:03.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:03.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:03.342][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 23:45:03.343][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 23:45:03.345][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:03.346][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:03.348][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 23:45:03.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 23:45:03.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:03.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:03.353][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 23:45:03.355][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 23:45:03.356][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:03.358][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:03.359][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 23:45:03.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 23:45:03.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:03.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:03.365][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 23:45:03.367][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 23:45:03.368][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:03.369][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:03.371][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 23:45:03.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 23:45:03.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:03.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:03.377][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:45:03.378][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:45:03.380][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:03.381][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:03.383][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 23:45:03.384][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:03.385][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:03.387][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:03.388][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 23:45:03.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:03.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:03.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:03.394][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:03.396][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:03.397][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:03.398][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:03.400][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:03.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:03.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:03.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:03.406][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-06 23:45:03.408][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 23:45:03.409][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:03.410][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:03.412][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 23:45:03.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 23:45:03.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:03.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:03.418][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 23:45:03.419][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 23:45:03.421][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:03.422][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:03.424][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 23:45:03.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 23:45:03.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:03.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:03.429][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 23:45:03.431][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 23:45:03.432][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:03.433][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:03.435][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 23:45:03.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 23:45:03.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:03.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:03.441][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:03.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:03.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:03.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:03.446][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:03.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:03.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:03.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:03.452][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:03.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:03.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:03.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:03.458][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:03.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:03.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:03.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:03.463][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:03.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:03.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:03.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:03.469][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:03.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:03.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:03.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:03.484][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:03.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:03.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:03.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:03.492][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:03.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:03.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:03.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:03.500][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:03.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:03.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:03.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:03.508][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:03.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:03.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:03.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:03.516][self$createEntryFromContent] Accession numbers: 209892.
biodb.TRACE[2025-03-06 23:45:03.519][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:03.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:03.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:03.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:03.527][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:03.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:03.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:03.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:03.535][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:03.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:03.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:03.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:03.584][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-03-06 23:45:03.588][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-06 23:45:03.589][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-03-06 23:45:03.591][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 23:45:03.593][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-03-06 23:45:03.596][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:03.597][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:03.598][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:03.611][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:03.612][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:03.613][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:03.615][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:03.616][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:03.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:03.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:03.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:03.621][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:03.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:03.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:03.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:03.627][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:03.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:03.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:03.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:03.632][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:03.633][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:03.634][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:03.651][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:03.652][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:03.653][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:03.654][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:03.656][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2025-03-06 23:45:03.657][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-06 23:45:03.659][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26747".
biodb.TRACE[2025-03-06 23:45:03.661][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-03-06 23:45:03.662][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-03-06 23:45:03.663][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-06 23:45:03.665][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-03-06 23:45:03.666][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-03-06 23:45:03.667][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-03-06 23:45:03.670][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:03.672][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:03.674][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:03.688][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:03.691][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:03.692][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:03.694][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:03.695][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=26747".
biodb.DEBUG[2025-03-06 23:45:03.698][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-03-06 23:45:03.700][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-03-06 23:45:03.701][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=26747".
biodb.TRACE[2025-03-06 23:45:04.004][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=26747).
biodb.DEBUG[2025-03-06 23:45:04.319][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-03-06 23:45:04.321][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/462a35453014388bd90df1c9e4ade520.content"
biodb.TRACE[2025-03-06 23:45:04.326][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/462a35453014388bd90df1c9e4ade520.request"
biodb.TRACE[2025-03-06 23:45:04.330][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml"
biodb.DEBUG[2025-03-06 23:45:04.332][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-03-06 23:45:04.333][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-06 23:45:04.335][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-06 23:45:04.337][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:04.338][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:04.339][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:04.350][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:04.352][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:04.353][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:04.354][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:04.357][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:04.358][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:04.359][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:04.360][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:04.362][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:04.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:04.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:04.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:04.367][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 23:45:04.368][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 23:45:04.369][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:04.370][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:04.372][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 23:45:04.373][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 23:45:04.374][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:04.375][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:04.377][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 23:45:04.378][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 23:45:04.379][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:04.381][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:04.382][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 23:45:04.383][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 23:45:04.384][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:04.386][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:04.387][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:45:04.388][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:45:04.390][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:04.392][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:04.394][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 23:45:04.396][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:04.397][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:04.399][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:04.400][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:04.401][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:04.402][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:04.404][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:04.405][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-06 23:45:04.407][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 23:45:04.408][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:04.409][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:04.411][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 23:45:04.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 23:45:04.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:04.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:04.416][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 23:45:04.417][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 23:45:04.418][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:04.419][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:04.421][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 23:45:04.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 23:45:04.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:04.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:04.426][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 23:45:04.427][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 23:45:04.428][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:04.429][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:04.431][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:04.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:04.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:04.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:04.436][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:04.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:04.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:04.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:04.441][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:04.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:04.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:04.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:04.446][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:04.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:04.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:04.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:04.451][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:04.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:04.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:04.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:04.456][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:04.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:04.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:04.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:04.462][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:04.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:04.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:04.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:04.467][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:04.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:04.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:04.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:04.473][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:04.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:04.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:04.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:04.479][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:04.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:04.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:04.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:04.485][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2025-03-06 23:45:04.486][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:04.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:04.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:04.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:04.491][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:04.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:04.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:04.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:04.496][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:04.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:04.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:04.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:04.501][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:04.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:04.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:04.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:04.506][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:04.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:04.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:04.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:04.511][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:04.513][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:04.514][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:04.526][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:04.527][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:04.528][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:04.529][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:04.531][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2025-03-06 23:45:04.532][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-06 23:45:04.534][cch$loadFileContent] Trying to load 1 files from cache: [1]: "59285".
biodb.TRACE[2025-03-06 23:45:04.535][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-03-06 23:45:04.537][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-03-06 23:45:04.538][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-06 23:45:04.539][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-03-06 23:45:04.541][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-03-06 23:45:04.542][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-03-06 23:45:04.545][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:04.546][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:04.547][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:04.572][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:04.573][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:04.575][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:04.576][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:04.577][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=59285".
biodb.DEBUG[2025-03-06 23:45:04.581][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-03-06 23:45:04.582][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-03-06 23:45:04.584][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=59285".
biodb.TRACE[2025-03-06 23:45:04.895][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=59285).
biodb.DEBUG[2025-03-06 23:45:05.217][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-03-06 23:45:05.220][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a390fa120be311b7c431851d8d66d5ac.content"
biodb.TRACE[2025-03-06 23:45:05.225][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a390fa120be311b7c431851d8d66d5ac.request"
biodb.TRACE[2025-03-06 23:45:05.229][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml"
biodb.DEBUG[2025-03-06 23:45:05.231][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-03-06 23:45:05.233][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-06 23:45:05.235][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-06 23:45:05.237][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:05.238][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:05.239][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:05.246][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:05.248][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:05.249][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:05.250][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[2025-03-06 23:45:05.253][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:05.254][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:05.256][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:05.257][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:05.258][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:05.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:05.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:05.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:05.264][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 23:45:05.265][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 23:45:05.266][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:05.267][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:05.269][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 23:45:05.270][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 23:45:05.271][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:05.273][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:05.274][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 23:45:05.276][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 23:45:05.277][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:05.278][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:05.280][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 23:45:05.281][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 23:45:05.282][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:05.284][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:05.286][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:45:05.288][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:45:05.290][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:05.292][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:05.306][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 23:45:05.307][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:05.309][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:05.310][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:05.311][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:05.313][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:05.314][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:05.315][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:05.317][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-06 23:45:05.319][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 23:45:05.320][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:05.321][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:05.323][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 23:45:05.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 23:45:05.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:05.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:05.328][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 23:45:05.330][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 23:45:05.331][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:05.332][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:05.334][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 23:45:05.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 23:45:05.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:05.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:05.339][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 23:45:05.340][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 23:45:05.341][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:05.342][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:05.344][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:05.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:05.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:05.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:05.349][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:05.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:05.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:05.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:05.354][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:05.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:05.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:05.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:05.358][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:05.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:05.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:05.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:05.363][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:05.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:05.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:05.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:05.368][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:05.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:05.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:05.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:05.373][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:05.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:05.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:05.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:05.378][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:05.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:05.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:05.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:05.383][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:05.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:05.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:05.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:05.388][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:05.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:05.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:05.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:05.393][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2025-03-06 23:45:05.394][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:05.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:05.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:05.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:05.399][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:05.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:05.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:05.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:05.405][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:05.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:05.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:05.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:05.410][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:05.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:05.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:05.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:05.415][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:05.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:05.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:05.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:05.420][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:05.421][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:05.422][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:05.436][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:05.438][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:05.440][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:05.442][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:05.443][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2025-03-06 23:45:05.445][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-06 23:45:05.447][cch$loadFileContent] Trying to load 1 files from cache: [1]: "75174".
biodb.TRACE[2025-03-06 23:45:05.448][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-03-06 23:45:05.450][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-03-06 23:45:05.451][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-06 23:45:05.453][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-03-06 23:45:05.454][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-03-06 23:45:05.455][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-03-06 23:45:05.460][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:05.462][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:05.463][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:05.481][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:05.483][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:05.484][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:05.485][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:05.487][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75174".
biodb.DEBUG[2025-03-06 23:45:05.490][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-03-06 23:45:05.492][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-03-06 23:45:05.494][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75174".
biodb.TRACE[2025-03-06 23:45:05.823][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75174).
biodb.DEBUG[2025-03-06 23:45:06.134][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-03-06 23:45:06.137][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/379ec57940c7734782bc4c07c7e15a9b.content"
biodb.TRACE[2025-03-06 23:45:06.142][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/379ec57940c7734782bc4c07c7e15a9b.request"
biodb.TRACE[2025-03-06 23:45:06.146][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml"
biodb.DEBUG[2025-03-06 23:45:06.149][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-03-06 23:45:06.150][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-06 23:45:06.152][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-06 23:45:06.154][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:06.155][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:06.156][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:06.170][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:06.172][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:06.174][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:06.176][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:06.181][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:06.183][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:06.185][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:06.187][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:06.189][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:06.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:06.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:06.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:06.197][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 23:45:06.198][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 23:45:06.199][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:06.200][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:06.202][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 23:45:06.203][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 23:45:06.204][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:06.206][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:06.207][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 23:45:06.209][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 23:45:06.210][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:06.211][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:06.212][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 23:45:06.214][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 23:45:06.215][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:06.216][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:06.217][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:45:06.218][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:45:06.220][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:06.221][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:06.222][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 23:45:06.224][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:06.225][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:06.226][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:06.227][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:06.229][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:06.230][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:06.231][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:06.232][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-06 23:45:06.233][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 23:45:06.235][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:06.236][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:06.238][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 23:45:06.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 23:45:06.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:06.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:06.243][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 23:45:06.244][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 23:45:06.245][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:06.246][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:06.248][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 23:45:06.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 23:45:06.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:06.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:06.253][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 23:45:06.254][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 23:45:06.255][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:06.256][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:06.258][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:06.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:06.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:06.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:06.263][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:06.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:06.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:06.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:06.268][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:06.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:06.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:06.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:06.273][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:06.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:06.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:06.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:06.278][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:06.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:06.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:06.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:06.283][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:06.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:06.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:06.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:06.288][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:06.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:06.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:06.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:06.293][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:06.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:06.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:06.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:06.298][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:06.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:06.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:06.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:06.303][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:06.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:06.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:06.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:06.308][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2025-03-06 23:45:06.310][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:06.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:06.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:06.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:06.314][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:06.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:06.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:06.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:06.320][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:06.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:06.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:06.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:06.325][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:06.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:06.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:06.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:06.330][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:06.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:06.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:06.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:06.335][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:06.336][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:06.337][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:06.347][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:06.348][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:06.350][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:06.351][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:06.352][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2025-03-06 23:45:06.353][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-06 23:45:06.355][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15441".
biodb.TRACE[2025-03-06 23:45:06.357][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-03-06 23:45:06.358][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-03-06 23:45:06.360][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-06 23:45:06.361][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-03-06 23:45:06.362][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-03-06 23:45:06.364][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-03-06 23:45:06.367][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:06.368][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:06.369][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:06.380][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:06.381][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:06.382][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:06.383][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:06.385][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15441".
biodb.DEBUG[2025-03-06 23:45:06.388][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-03-06 23:45:06.389][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-03-06 23:45:06.391][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15441".
biodb.TRACE[2025-03-06 23:45:06.703][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15441).
biodb.DEBUG[2025-03-06 23:45:07.062][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-03-06 23:45:07.065][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a6d4f93841bd82da498852b3a0a5692d.content"
biodb.TRACE[2025-03-06 23:45:07.070][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a6d4f93841bd82da498852b3a0a5692d.request"
biodb.TRACE[2025-03-06 23:45:07.075][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml"
biodb.DEBUG[2025-03-06 23:45:07.079][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-03-06 23:45:07.081][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-06 23:45:07.084][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-06 23:45:07.087][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:07.089][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:07.091][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:07.102][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:07.104][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:07.105][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:07.107][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.TRACE[2025-03-06 23:45:07.111][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:07.112][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:07.114][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:07.115][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:07.117][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:07.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:07.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:07.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:07.123][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 23:45:07.125][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 23:45:07.127][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:07.128][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:07.130][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 23:45:07.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 23:45:07.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:07.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:07.144][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 23:45:07.145][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 23:45:07.147][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:07.148][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:07.151][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 23:45:07.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 23:45:07.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:07.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:07.156][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 23:45:07.157][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 23:45:07.159][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:07.160][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:07.161][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 23:45:07.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 23:45:07.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:07.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:07.167][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 23:45:07.169][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 23:45:07.170][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:07.171][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:07.174][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 23:45:07.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 23:45:07.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:07.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:07.179][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:45:07.181][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:45:07.182][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:07.184][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:07.185][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:45:07.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:45:07.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:07.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:07.190][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 23:45:07.192][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:07.194][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:07.195][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:07.196][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 23:45:07.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:07.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:07.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:07.202][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:07.203][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:07.204][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:07.205][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:07.207][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:07.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:07.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:07.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:07.212][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-06 23:45:07.214][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 23:45:07.215][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:07.217][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:07.220][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 23:45:07.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 23:45:07.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:07.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:07.228][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 23:45:07.229][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 23:45:07.231][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:07.232][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:07.234][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 23:45:07.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 23:45:07.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:07.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:07.240][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 23:45:07.241][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 23:45:07.242][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:07.244][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:07.246][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 23:45:07.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 23:45:07.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:07.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:07.251][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:07.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:07.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:07.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:07.256][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:07.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:07.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:07.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:07.261][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:07.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:07.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:07.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:07.266][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:07.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:07.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:07.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:07.272][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:07.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:07.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:07.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:07.277][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:07.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:07.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:07.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:07.282][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:07.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:07.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:07.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:07.287][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:07.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:07.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:07.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:07.292][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:07.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:07.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:07.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:07.299][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:07.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:07.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:07.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:07.307][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2025-03-06 23:45:07.309][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:07.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:07.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:07.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:07.315][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:07.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:07.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:07.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:07.320][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:07.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:07.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:07.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:07.325][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:07.326][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:07.327][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:07.336][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:07.338][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:07.340][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:07.342][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:07.345][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2025-03-06 23:45:07.347][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-06 23:45:07.350][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15442".
biodb.TRACE[2025-03-06 23:45:07.352][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-03-06 23:45:07.355][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-03-06 23:45:07.357][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-06 23:45:07.359][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-03-06 23:45:07.361][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-03-06 23:45:07.363][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-03-06 23:45:07.368][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:07.369][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:07.371][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:07.389][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:07.391][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:07.393][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:07.395][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:07.397][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15442".
biodb.DEBUG[2025-03-06 23:45:07.403][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-03-06 23:45:07.405][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-03-06 23:45:07.407][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15442".
biodb.TRACE[2025-03-06 23:45:07.722][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15442).
biodb.DEBUG[2025-03-06 23:45:08.043][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-03-06 23:45:08.046][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4c2c678eeeeb53d29ca6f3663ebee297.content"
biodb.TRACE[2025-03-06 23:45:08.051][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4c2c678eeeeb53d29ca6f3663ebee297.request"
biodb.TRACE[2025-03-06 23:45:08.055][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml"
biodb.DEBUG[2025-03-06 23:45:08.057][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-03-06 23:45:08.059][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-06 23:45:08.060][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-06 23:45:08.062][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:08.063][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:08.064][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:08.076][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:08.078][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:08.079][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:08.080][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.TRACE[2025-03-06 23:45:08.082][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:08.084][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:08.085][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:08.086][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:08.088][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:08.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:08.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:08.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:08.093][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 23:45:08.094][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 23:45:08.095][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:08.096][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:08.098][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 23:45:08.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 23:45:08.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:08.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:08.103][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 23:45:08.104][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 23:45:08.105][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:08.106][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:08.108][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 23:45:08.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 23:45:08.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:08.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:08.113][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 23:45:08.114][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 23:45:08.115][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:08.116][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:08.118][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 23:45:08.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 23:45:08.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:08.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:08.123][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 23:45:08.125][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 23:45:08.127][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:08.129][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:08.131][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 23:45:08.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 23:45:08.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:08.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:08.139][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:45:08.141][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:45:08.143][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:08.144][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:08.147][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:45:08.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:45:08.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:08.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:08.152][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 23:45:08.154][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:08.155][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:08.156][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:08.157][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 23:45:08.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:08.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:08.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:08.162][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:08.164][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:08.165][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:08.166][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:08.168][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:08.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:08.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:08.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:08.173][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-06 23:45:08.175][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 23:45:08.176][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:08.177][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:08.179][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 23:45:08.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 23:45:08.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:08.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:08.184][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 23:45:08.185][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 23:45:08.186][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:08.187][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:08.189][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 23:45:08.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 23:45:08.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:08.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:08.194][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 23:45:08.195][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 23:45:08.196][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:08.197][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:08.199][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 23:45:08.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 23:45:08.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:08.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:08.204][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:08.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:08.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:08.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:08.209][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:08.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:08.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:08.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:08.214][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:08.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:08.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:08.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:08.219][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:08.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:08.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:08.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:08.224][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:08.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:08.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:08.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:08.228][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:08.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:08.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:08.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:08.233][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:08.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:08.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:08.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:08.238][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:08.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:08.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:08.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:08.243][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:08.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:08.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:08.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:08.248][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:08.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:08.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:08.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:08.253][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2025-03-06 23:45:08.254][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:08.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:08.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:08.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:08.259][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:08.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:08.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:08.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:08.264][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:08.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:08.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:08.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:08.269][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:08.270][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:08.271][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:08.300][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:08.301][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:08.303][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:08.304][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:08.305][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2025-03-06 23:45:08.306][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-06 23:45:08.308][cch$loadFileContent] Trying to load 1 files from cache: [1]: "57310".
biodb.TRACE[2025-03-06 23:45:08.310][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-03-06 23:45:08.312][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-03-06 23:45:08.320][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-06 23:45:08.321][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-03-06 23:45:08.322][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-03-06 23:45:08.324][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-03-06 23:45:08.327][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:08.328][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:08.329][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:08.335][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:08.336][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:08.338][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:08.339][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:08.340][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=57310".
biodb.DEBUG[2025-03-06 23:45:08.343][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-03-06 23:45:08.345][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-03-06 23:45:08.346][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=57310".
biodb.TRACE[2025-03-06 23:45:08.650][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=57310).
biodb.DEBUG[2025-03-06 23:45:08.984][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-03-06 23:45:08.987][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e616043f98d9256021d0f5715e02d37b.content"
biodb.TRACE[2025-03-06 23:45:08.991][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e616043f98d9256021d0f5715e02d37b.request"
biodb.TRACE[2025-03-06 23:45:08.995][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml"
biodb.DEBUG[2025-03-06 23:45:08.997][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-03-06 23:45:08.998][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-06 23:45:09.000][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-06 23:45:09.002][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:09.003][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:09.004][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:09.020][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:09.021][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:09.023][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:09.024][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.TRACE[2025-03-06 23:45:09.026][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:09.028][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:09.029][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:09.030][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:09.031][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:09.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:09.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:09.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:09.036][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 23:45:09.038][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 23:45:09.039][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:09.040][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:09.041][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 23:45:09.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 23:45:09.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:09.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:09.046][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 23:45:09.047][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 23:45:09.049][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:09.050][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:09.051][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 23:45:09.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 23:45:09.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:09.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:09.056][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 23:45:09.057][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 23:45:09.059][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:09.060][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:09.061][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 23:45:09.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 23:45:09.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:09.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:09.066][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 23:45:09.068][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 23:45:09.069][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:09.070][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:09.071][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 23:45:09.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 23:45:09.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:09.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:09.076][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:45:09.079][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:45:09.080][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:09.081][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:09.083][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 23:45:09.084][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:09.085][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:09.086][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:09.088][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 23:45:09.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:09.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:09.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:09.093][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:09.094][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:09.095][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:09.096][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:09.098][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:09.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:09.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:09.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:09.103][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-06 23:45:09.104][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 23:45:09.105][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:09.107][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:09.108][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 23:45:09.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 23:45:09.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:09.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:09.113][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 23:45:09.114][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 23:45:09.116][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:09.117][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:09.118][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 23:45:09.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 23:45:09.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:09.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:09.123][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 23:45:09.125][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 23:45:09.126][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:09.127][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:09.128][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 23:45:09.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 23:45:09.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:09.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:09.133][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:09.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:09.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:09.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:09.138][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:09.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:09.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:09.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:09.143][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:09.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:09.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:09.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:09.148][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:09.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:09.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:09.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:09.153][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:09.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:09.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:09.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:09.158][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:09.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:09.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:09.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:09.163][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:09.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:09.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:09.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:09.168][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:09.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:09.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:09.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:09.173][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:09.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:09.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:09.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:09.178][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:09.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:09.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:09.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:09.183][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2025-03-06 23:45:09.184][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:09.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:09.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:09.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:09.189][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:09.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:09.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:09.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:09.194][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:09.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:09.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:09.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:09.199][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:09.200][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:09.201][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:09.208][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:09.209][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:09.210][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:09.211][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:09.212][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2025-03-06 23:45:09.214][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-06 23:45:09.216][cch$loadFileContent] Trying to load 1 files from cache: [1]: "66216".
biodb.TRACE[2025-03-06 23:45:09.217][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-03-06 23:45:09.219][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-03-06 23:45:09.220][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-06 23:45:09.221][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-03-06 23:45:09.222][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-03-06 23:45:09.224][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-03-06 23:45:09.227][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:09.228][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:09.229][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:09.265][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:09.267][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:09.268][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:09.269][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:09.271][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66216".
biodb.DEBUG[2025-03-06 23:45:09.274][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-03-06 23:45:09.275][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-03-06 23:45:09.277][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66216".
biodb.TRACE[2025-03-06 23:45:09.594][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66216).
biodb.DEBUG[2025-03-06 23:45:09.903][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-03-06 23:45:09.906][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a59039263bdeb010b063b31b1dcdd109.content"
biodb.TRACE[2025-03-06 23:45:09.911][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a59039263bdeb010b063b31b1dcdd109.request"
biodb.TRACE[2025-03-06 23:45:09.916][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml"
biodb.DEBUG[2025-03-06 23:45:09.919][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-03-06 23:45:09.920][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-06 23:45:09.922][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-06 23:45:09.924][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:09.925][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:09.926][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:09.945][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:09.946][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:09.947][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:09.949][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[2025-03-06 23:45:09.951][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:09.953][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:09.954][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:09.955][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:09.956][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:09.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:09.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:09.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:09.961][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 23:45:09.963][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 23:45:09.964][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:09.965][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:09.966][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 23:45:09.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 23:45:09.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:09.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:09.971][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 23:45:09.973][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 23:45:09.974][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:09.975][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:09.976][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 23:45:09.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 23:45:09.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:09.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:09.981][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 23:45:09.983][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 23:45:09.984][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:09.985][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:09.986][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 23:45:09.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 23:45:09.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:09.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:09.991][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 23:45:09.993][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 23:45:09.994][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:09.995][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:09.996][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 23:45:09.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 23:45:09.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:10.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:10.001][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:45:10.003][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:45:10.004][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:10.005][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:10.006][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 23:45:10.008][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:10.009][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:10.010][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:10.011][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 23:45:10.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:10.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:10.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:10.016][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:10.018][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:10.019][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:10.020][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:10.022][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:10.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:10.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:10.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:10.026][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-06 23:45:10.028][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 23:45:10.029][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:10.030][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:10.032][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 23:45:10.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 23:45:10.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:10.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:10.037][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 23:45:10.038][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 23:45:10.039][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:10.040][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:10.042][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 23:45:10.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 23:45:10.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:10.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:10.047][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 23:45:10.048][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 23:45:10.049][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:10.050][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:10.052][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 23:45:10.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 23:45:10.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:10.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:10.057][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:10.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:10.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:10.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:10.062][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:10.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:10.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:10.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:10.067][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:10.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:10.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:10.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:10.071][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:10.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:10.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:10.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:10.086][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:10.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:10.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:10.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:10.091][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:10.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:10.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:10.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:10.096][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:10.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:10.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:10.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:10.101][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:10.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:10.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:10.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:10.106][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:10.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:10.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:10.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:10.112][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:10.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:10.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:10.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:10.119][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2025-03-06 23:45:10.122][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:10.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:10.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:10.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:10.128][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:10.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:10.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:10.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:10.133][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:10.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:10.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:10.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:10.138][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:10.139][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:10.140][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:10.147][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:10.148][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:10.149][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:10.150][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:10.152][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2025-03-06 23:45:10.153][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-06 23:45:10.155][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70860".
biodb.TRACE[2025-03-06 23:45:10.156][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-03-06 23:45:10.158][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-03-06 23:45:10.159][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-06 23:45:10.161][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-03-06 23:45:10.162][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-03-06 23:45:10.163][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-03-06 23:45:10.166][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:10.167][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:10.169][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:10.189][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:10.190][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:10.191][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:10.192][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:10.194][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70860".
biodb.DEBUG[2025-03-06 23:45:10.197][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-03-06 23:45:10.199][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-03-06 23:45:10.200][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70860".
biodb.TRACE[2025-03-06 23:45:10.511][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70860).
biodb.DEBUG[2025-03-06 23:45:10.821][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-03-06 23:45:10.824][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/02f38adb5262f39c1de7b27972a97d3a.content"
biodb.TRACE[2025-03-06 23:45:10.828][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/02f38adb5262f39c1de7b27972a97d3a.request"
biodb.TRACE[2025-03-06 23:45:10.832][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml"
biodb.DEBUG[2025-03-06 23:45:10.834][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-03-06 23:45:10.836][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-06 23:45:10.838][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-06 23:45:10.839][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:10.840][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:10.842][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:10.849][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:10.850][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:10.851][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:10.852][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[2025-03-06 23:45:10.855][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:10.857][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:10.858][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:10.859][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:10.861][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:10.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:10.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:10.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:10.866][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 23:45:10.867][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 23:45:10.868][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:10.870][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:10.871][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 23:45:10.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 23:45:10.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:10.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:10.877][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 23:45:10.879][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 23:45:10.881][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:10.883][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:10.885][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 23:45:10.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 23:45:10.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:10.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:10.893][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 23:45:10.896][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 23:45:10.897][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:10.899][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:10.902][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 23:45:10.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 23:45:10.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:10.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:10.910][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 23:45:10.912][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 23:45:10.914][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:10.915][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:10.918][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 23:45:10.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 23:45:10.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:10.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:10.925][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:45:10.927][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:45:10.928][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:10.929][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:10.931][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 23:45:10.932][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:10.933][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:10.935][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:10.936][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 23:45:10.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:10.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:10.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:10.941][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:10.943][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:10.944][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:10.945][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:10.947][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:10.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:10.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:10.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:10.952][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-06 23:45:10.953][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 23:45:10.954][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:10.956][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:10.957][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 23:45:10.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 23:45:10.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:10.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:10.962][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 23:45:10.964][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 23:45:10.965][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:10.966][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:10.968][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 23:45:10.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 23:45:10.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:10.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:10.973][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 23:45:10.974][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 23:45:10.975][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:10.977][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:10.978][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 23:45:10.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 23:45:10.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:10.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:10.983][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:10.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:10.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:10.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:10.989][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:10.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:10.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:10.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:10.997][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:10.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:11.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:11.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:11.005][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:11.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:11.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:11.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:11.010][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:11.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:11.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:11.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:11.015][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:11.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:11.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:11.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:11.020][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:11.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:11.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:11.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:11.025][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:11.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:11.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:11.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:11.030][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:11.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:11.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:11.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:11.035][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:11.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:11.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:11.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:11.040][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2025-03-06 23:45:11.041][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:11.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:11.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:11.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:11.047][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:11.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:11.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:11.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:11.052][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:11.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:11.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:11.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:11.057][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:11.058][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:11.059][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:11.067][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:11.070][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:11.072][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:11.073][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:11.076][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2025-03-06 23:45:11.078][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-06 23:45:11.081][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70861".
biodb.TRACE[2025-03-06 23:45:11.084][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-03-06 23:45:11.086][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-03-06 23:45:11.088][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-06 23:45:11.091][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-03-06 23:45:11.093][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-03-06 23:45:11.095][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-03-06 23:45:11.099][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:11.101][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:11.103][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:11.115][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:11.117][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:11.119][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:11.120][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:11.123][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70861".
biodb.DEBUG[2025-03-06 23:45:11.128][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-03-06 23:45:11.130][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-03-06 23:45:11.133][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70861".
biodb.TRACE[2025-03-06 23:45:11.450][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=70861).
biodb.DEBUG[2025-03-06 23:45:11.766][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-03-06 23:45:11.769][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2469ce985de4364ded27031736786fb4.content"
biodb.TRACE[2025-03-06 23:45:11.773][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2469ce985de4364ded27031736786fb4.request"
biodb.TRACE[2025-03-06 23:45:11.778][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml"
biodb.DEBUG[2025-03-06 23:45:11.780][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-03-06 23:45:11.782][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-06 23:45:11.783][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-06 23:45:11.785][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:11.787][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:11.788][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:11.801][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:11.803][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:11.804][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:11.806][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:11.809][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:11.810][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:11.812][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:11.813][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:11.815][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:11.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:11.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:11.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:11.823][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 23:45:11.825][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 23:45:11.826][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:11.827][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:11.829][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 23:45:11.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 23:45:11.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:11.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:11.834][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 23:45:11.836][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 23:45:11.837][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:11.838][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:11.841][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 23:45:11.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 23:45:11.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:11.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:11.848][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 23:45:11.850][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 23:45:11.852][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:11.854][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:11.857][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 23:45:11.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 23:45:11.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:11.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:11.865][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 23:45:11.867][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 23:45:11.869][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:11.870][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:11.872][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 23:45:11.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 23:45:11.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:11.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:11.877][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:45:11.878][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:45:11.879][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:11.880][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:11.882][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 23:45:12.063][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:12.068][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:12.070][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:12.071][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 23:45:12.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:12.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:12.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:12.076][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:12.078][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:12.079][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:12.080][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:12.081][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:12.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:12.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:12.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:12.086][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-06 23:45:12.088][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 23:45:12.089][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:12.090][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:12.091][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 23:45:12.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 23:45:12.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:12.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:12.096][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 23:45:12.098][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 23:45:12.099][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:12.100][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:12.102][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 23:45:12.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 23:45:12.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:12.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:12.107][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 23:45:12.108][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 23:45:12.110][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:12.111][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:12.112][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 23:45:12.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 23:45:12.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:12.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:12.118][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:12.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:12.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:12.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:12.123][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:12.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:12.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:12.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:12.128][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:12.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:12.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:12.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:12.133][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:12.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:12.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:12.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:12.138][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:12.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:12.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:12.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:12.143][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:12.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:12.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:12.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:12.148][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:12.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:12.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:12.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:12.155][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:12.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:12.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:12.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:12.160][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:12.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:12.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:12.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:12.165][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:12.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:12.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:12.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:12.170][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2025-03-06 23:45:12.172][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:12.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:12.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:12.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:12.177][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:12.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:12.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:12.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:12.182][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:12.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:12.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:12.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:12.187][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:12.188][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:12.189][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:12.199][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:12.201][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:12.202][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:12.203][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:12.204][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2025-03-06 23:45:12.205][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-06 23:45:12.207][cch$loadFileContent] Trying to load 1 files from cache: [1]: "78662".
biodb.TRACE[2025-03-06 23:45:12.209][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-03-06 23:45:12.211][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-03-06 23:45:12.212][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-06 23:45:12.213][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-03-06 23:45:12.214][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-03-06 23:45:12.215][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-03-06 23:45:12.218][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:12.220][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:12.221][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:12.228][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:12.229][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:12.230][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:12.232][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:12.233][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=78662".
biodb.DEBUG[2025-03-06 23:45:12.236][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-03-06 23:45:12.237][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-03-06 23:45:12.239][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=78662".
biodb.TRACE[2025-03-06 23:45:12.545][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=78662).
biodb.DEBUG[2025-03-06 23:45:12.861][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-03-06 23:45:12.864][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2a2164b6127ca54c00efe5984f5864a.content"
biodb.TRACE[2025-03-06 23:45:12.868][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2a2164b6127ca54c00efe5984f5864a.request"
biodb.TRACE[2025-03-06 23:45:12.872][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml"
biodb.DEBUG[2025-03-06 23:45:12.875][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-03-06 23:45:12.877][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-06 23:45:12.878][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-06 23:45:12.880][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:12.881][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:12.882][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:12.889][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:12.890][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:12.891][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:12.892][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:12.895][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:12.896][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:12.897][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:12.898][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:12.900][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:12.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:12.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:12.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:12.905][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 23:45:12.906][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 23:45:12.907][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:12.908][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:12.910][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 23:45:12.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 23:45:12.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:12.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:12.914][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 23:45:12.916][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 23:45:12.917][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:12.918][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:12.919][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 23:45:12.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 23:45:12.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:12.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:12.924][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 23:45:12.925][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 23:45:12.927][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:12.928][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:12.929][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 23:45:12.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 23:45:12.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:12.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:12.934][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 23:45:12.935][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 23:45:12.936][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:12.937][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:12.939][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 23:45:12.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 23:45:12.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:12.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:12.944][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:45:12.945][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:45:12.946][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:12.947][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:12.949][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 23:45:12.950][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:12.951][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:12.952][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:12.954][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 23:45:12.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:12.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:12.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:12.958][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:12.960][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:12.961][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:12.962][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:12.963][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:12.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:12.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:12.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:12.968][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-06 23:45:12.970][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 23:45:12.971][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:12.972][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:12.974][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 23:45:12.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 23:45:12.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:12.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:12.979][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 23:45:12.980][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 23:45:12.981][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:12.982][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:12.984][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 23:45:12.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 23:45:12.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:12.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:12.989][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 23:45:12.990][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 23:45:12.991][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:12.992][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:12.994][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 23:45:12.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 23:45:12.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:12.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:12.999][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:13.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:13.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:13.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:13.004][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:13.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:13.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:13.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:13.008][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:13.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:13.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:13.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:13.013][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:13.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:13.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:13.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:13.018][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:13.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:13.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:13.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:13.022][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:13.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:13.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:13.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:13.027][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:13.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:13.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:13.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:13.032][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:13.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:13.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:13.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:13.037][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:13.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:13.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:13.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:13.042][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:13.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:13.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:13.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:13.047][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2025-03-06 23:45:13.048][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:13.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:13.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:13.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:13.053][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:13.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:13.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:13.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:13.058][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:13.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:13.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:13.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:13.062][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:13.063][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:13.064][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:13.071][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:13.072][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:13.074][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:13.075][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:13.076][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2025-03-06 23:45:13.077][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-06 23:45:13.079][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85084".
biodb.TRACE[2025-03-06 23:45:13.081][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-03-06 23:45:13.082][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-03-06 23:45:13.084][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-06 23:45:13.085][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-03-06 23:45:13.086][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-03-06 23:45:13.087][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-03-06 23:45:13.090][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:13.091][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:13.092][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:13.099][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:13.100][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:13.102][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:13.103][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:13.104][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85084".
biodb.DEBUG[2025-03-06 23:45:13.107][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-03-06 23:45:13.109][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-03-06 23:45:13.110][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85084".
biodb.TRACE[2025-03-06 23:45:13.479][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85084).
biodb.DEBUG[2025-03-06 23:45:13.823][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-03-06 23:45:13.826][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62216dc29cd0685dbac0a61545bda088.content"
biodb.TRACE[2025-03-06 23:45:13.831][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62216dc29cd0685dbac0a61545bda088.request"
biodb.TRACE[2025-03-06 23:45:13.835][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml"
biodb.DEBUG[2025-03-06 23:45:13.837][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-03-06 23:45:13.839][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-06 23:45:13.841][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-06 23:45:13.843][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:13.844][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:13.845][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:13.870][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:13.871][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:13.872][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:13.873][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:13.876][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:13.877][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:13.878][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:13.880][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:13.881][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:13.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:13.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:13.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:13.886][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 23:45:13.887][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 23:45:13.889][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:13.891][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:13.892][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 23:45:13.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 23:45:13.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:13.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:13.897][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 23:45:13.899][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 23:45:13.900][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:13.901][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:13.902][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 23:45:13.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 23:45:13.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:13.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:13.907][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 23:45:13.909][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 23:45:13.910][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:13.911][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:13.912][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 23:45:13.914][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 23:45:13.915][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:13.916][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:13.918][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:45:13.919][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:45:13.920][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:13.922][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:13.923][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 23:45:13.924][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:13.925][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:13.927][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:13.928][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 23:45:13.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:13.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:13.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:13.933][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:13.934][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:13.935][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:13.937][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:13.938][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:13.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:13.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:13.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:13.943][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-06 23:45:13.944][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 23:45:13.945][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:13.946][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:13.948][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 23:45:13.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 23:45:13.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:13.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:13.953][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 23:45:13.954][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 23:45:13.955][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:13.957][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:13.958][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 23:45:13.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 23:45:13.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:13.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:13.963][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 23:45:13.964][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 23:45:13.965][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:13.966][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:13.968][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:13.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:13.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:13.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:13.973][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:13.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:13.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:13.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:13.978][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:13.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:13.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:13.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:13.982][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:13.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:13.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:13.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:13.987][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:13.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:13.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:13.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:13.992][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:13.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:13.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:13.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:13.998][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:14.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:14.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:14.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:14.003][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:14.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:14.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:14.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:14.008][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:14.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:14.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:14.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:14.013][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:14.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:14.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:14.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:14.018][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2025-03-06 23:45:14.019][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:14.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:14.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:14.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:14.025][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:14.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:14.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:14.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:14.030][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:14.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:14.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:14.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:14.035][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:14.036][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:14.037][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:14.048][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:14.049][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:14.050][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:14.051][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:14.053][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2025-03-06 23:45:14.054][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-06 23:45:14.056][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85086".
biodb.TRACE[2025-03-06 23:45:14.058][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-03-06 23:45:14.059][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-03-06 23:45:14.060][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-06 23:45:14.062][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-03-06 23:45:14.063][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-03-06 23:45:14.064][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-03-06 23:45:14.067][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:14.068][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:14.069][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:14.087][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:14.089][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:14.091][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:14.092][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:14.094][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85086".
biodb.DEBUG[2025-03-06 23:45:14.097][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-03-06 23:45:14.098][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-03-06 23:45:14.100][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85086".
biodb.TRACE[2025-03-06 23:45:14.426][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=85086).
biodb.DEBUG[2025-03-06 23:45:14.747][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-03-06 23:45:14.750][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/cf3472363c4a7effe355d93315025f8b.content"
biodb.TRACE[2025-03-06 23:45:14.755][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/cf3472363c4a7effe355d93315025f8b.request"
biodb.TRACE[2025-03-06 23:45:14.759][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml"
biodb.DEBUG[2025-03-06 23:45:14.761][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-03-06 23:45:14.763][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-06 23:45:14.765][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-06 23:45:14.766][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:14.768][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:14.769][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:14.785][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:14.786][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:14.788][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:14.789][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:14.792][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:14.794][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:14.796][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:14.798][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:14.800][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:14.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:14.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:14.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:14.809][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 23:45:14.811][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 23:45:14.813][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:14.815][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:14.818][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 23:45:14.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 23:45:14.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:14.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:14.826][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 23:45:14.828][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 23:45:14.830][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:14.832][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:14.835][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 23:45:14.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 23:45:14.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:14.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:14.843][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 23:45:14.845][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 23:45:14.847][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:14.848][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:14.849][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 23:45:14.851][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 23:45:14.852][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:14.853][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:14.855][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:45:14.856][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:45:14.857][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:14.859][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:14.860][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 23:45:14.862][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:14.863][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:14.864][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:14.866][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 23:45:14.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:14.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:14.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:14.871][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:14.872][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:14.873][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:14.875][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:14.876][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:14.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:14.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:14.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:14.881][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-06 23:45:14.883][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 23:45:14.884][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:14.885][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:14.887][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 23:45:14.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 23:45:14.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:14.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:14.892][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 23:45:14.894][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 23:45:14.895][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:14.896][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:14.897][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 23:45:14.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 23:45:14.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:14.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:14.903][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 23:45:14.904][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 23:45:14.905][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:14.906][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:14.908][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:14.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:14.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:14.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:14.913][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:14.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:14.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:14.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:14.918][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:14.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:14.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:14.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:14.923][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:14.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:14.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:14.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:14.928][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:14.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:14.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:14.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:14.933][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:14.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:14.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:14.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:14.938][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:14.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:14.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:14.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:14.944][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:14.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:14.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:14.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:14.949][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:14.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:14.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:14.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:14.955][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:14.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:14.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:14.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:14.964][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2025-03-06 23:45:14.966][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:14.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:14.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:14.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:14.975][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:14.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:14.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:14.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:14.984][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:14.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:14.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:14.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:14.992][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:14.994][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:14.995][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:15.007][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:15.008][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:15.009][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:15.011][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:15.012][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2025-03-06 23:45:15.014][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-06 23:45:15.017][cch$loadFileContent] Trying to load 1 files from cache: [1]: "88123".
biodb.TRACE[2025-03-06 23:45:15.020][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-03-06 23:45:15.022][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-03-06 23:45:15.024][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-06 23:45:15.026][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-03-06 23:45:15.028][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-03-06 23:45:15.029][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-03-06 23:45:15.032][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:15.033][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:15.035][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:15.051][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:15.053][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:15.054][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:15.055][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:15.056][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=88123".
biodb.DEBUG[2025-03-06 23:45:15.059][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-03-06 23:45:15.061][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-03-06 23:45:15.063][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=88123".
biodb.TRACE[2025-03-06 23:45:15.382][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=88123).
biodb.DEBUG[2025-03-06 23:45:15.690][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-03-06 23:45:15.692][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8e37f256f660b350650d4ca45d7cd291.content"
biodb.TRACE[2025-03-06 23:45:15.697][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8e37f256f660b350650d4ca45d7cd291.request"
biodb.TRACE[2025-03-06 23:45:15.701][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml"
biodb.DEBUG[2025-03-06 23:45:15.703][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-03-06 23:45:15.705][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-06 23:45:15.706][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-06 23:45:15.708][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:15.709][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:15.710][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:15.717][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:15.718][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:15.719][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:15.720][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:15.723][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:15.725][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:15.726][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:15.727][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:15.728][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:15.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:15.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:15.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:15.733][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 23:45:15.735][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 23:45:15.736][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:15.737][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:15.738][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 23:45:15.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 23:45:15.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:15.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:15.743][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 23:45:15.744][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 23:45:15.746][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:15.747][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:15.748][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 23:45:15.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 23:45:15.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:15.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:15.753][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 23:45:15.754][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 23:45:15.756][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:15.757][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:15.758][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 23:45:15.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 23:45:15.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:15.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:15.763][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 23:45:15.764][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 23:45:15.766][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:15.767][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:15.768][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 23:45:15.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 23:45:15.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:15.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:15.774][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:45:15.776][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:45:15.777][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:15.778][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:15.780][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 23:45:15.781][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:15.782][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:15.783][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:15.785][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 23:45:15.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:15.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:15.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:15.790][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:15.791][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:15.793][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:15.794][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:15.796][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:15.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:15.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:15.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:15.801][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-06 23:45:15.802][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 23:45:15.803][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:15.804][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:15.806][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 23:45:15.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 23:45:15.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:15.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:15.811][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 23:45:15.812][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 23:45:15.813][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:15.815][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:15.816][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 23:45:15.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 23:45:15.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:15.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:15.821][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 23:45:15.823][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 23:45:15.824][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:15.825][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:15.826][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 23:45:15.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 23:45:15.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:15.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:15.832][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:15.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:15.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:15.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:15.837][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:15.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:15.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:15.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:15.841][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:15.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:15.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:15.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:15.846][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:15.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:15.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:15.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:15.851][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:15.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:15.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:15.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:15.856][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:15.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:15.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:15.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:15.861][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:15.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:15.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:15.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:15.866][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:15.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:15.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:15.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:15.871][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:15.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:15.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:15.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:15.876][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:15.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:15.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:15.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:15.881][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2025-03-06 23:45:15.882][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:15.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:15.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:15.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:15.887][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:15.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:15.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:15.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:15.892][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:15.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:15.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:15.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:15.899][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:15.901][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:15.903][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:15.924][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:15.926][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:15.927][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:15.928][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:15.929][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2025-03-06 23:45:15.930][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-06 23:45:15.932][cch$loadFileContent] Trying to load 1 files from cache: [1]: "134117".
biodb.TRACE[2025-03-06 23:45:15.934][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-03-06 23:45:15.935][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-03-06 23:45:15.937][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-06 23:45:15.938][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-03-06 23:45:15.939][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-03-06 23:45:15.940][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-03-06 23:45:15.943][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:15.944][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:15.945][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:15.983][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:15.985][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:15.986][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:15.988][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:15.989][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=134117".
biodb.DEBUG[2025-03-06 23:45:15.992][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-03-06 23:45:15.994][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-03-06 23:45:15.995][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=134117".
biodb.TRACE[2025-03-06 23:45:16.311][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=134117).
biodb.DEBUG[2025-03-06 23:45:16.634][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-03-06 23:45:16.636][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8f998f0023bf19b8745b926f0b2992d7.content"
biodb.TRACE[2025-03-06 23:45:16.641][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/8f998f0023bf19b8745b926f0b2992d7.request"
biodb.TRACE[2025-03-06 23:45:16.645][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml"
biodb.DEBUG[2025-03-06 23:45:16.647][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-03-06 23:45:16.648][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-06 23:45:16.650][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-06 23:45:16.652][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:16.653][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:16.654][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:17.375][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:17.376][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:17.377][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:17.378][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:17.381][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:17.382][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:17.384][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:17.385][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:17.386][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:17.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:17.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:17.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:17.391][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 23:45:17.392][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 23:45:17.393][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:17.395][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:17.396][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 23:45:17.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 23:45:17.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:17.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:17.401][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 23:45:17.403][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 23:45:17.404][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:17.405][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:17.406][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 23:45:17.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 23:45:17.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:17.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:17.411][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 23:45:17.413][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 23:45:17.414][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:17.415][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:17.416][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 23:45:17.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 23:45:17.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:17.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:17.421][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 23:45:17.422][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 23:45:17.424][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:17.425][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:17.426][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 23:45:17.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 23:45:17.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:17.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:17.431][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:45:17.433][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:45:17.434][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:17.435][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:17.437][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 23:45:17.438][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:17.439][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:17.440][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:17.442][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 23:45:17.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:17.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:17.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:17.447][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:17.448][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:17.449][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:17.450][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:17.452][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:17.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:17.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:17.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:17.457][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-06 23:45:17.458][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 23:45:17.460][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:17.461][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:17.464][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 23:45:17.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 23:45:17.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:17.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:17.470][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 23:45:17.471][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 23:45:17.472][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:17.473][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:17.475][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 23:45:17.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 23:45:17.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:17.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:17.480][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 23:45:17.481][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 23:45:17.482][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:17.483][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:17.485][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 23:45:17.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 23:45:17.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:17.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:17.490][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:17.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:17.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:17.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:17.495][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:17.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:17.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:17.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:17.500][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:17.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:17.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:17.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:17.505][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:17.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:17.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:17.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:17.511][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:17.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:17.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:17.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:17.516][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:17.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:17.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:17.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:17.522][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:17.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:17.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:17.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:17.541][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:17.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:17.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:17.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:17.546][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:17.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:17.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:17.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:17.551][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:17.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:17.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:17.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:17.556][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2025-03-06 23:45:17.557][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:17.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:17.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:17.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:17.562][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:17.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:17.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:17.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:17.567][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:17.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:17.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:17.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:17.572][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:17.573][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:17.574][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:17.586][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:17.588][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:17.590][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:17.592][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:17.594][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2025-03-06 23:45:17.596][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-06 23:45:17.599][cch$loadFileContent] Trying to load 1 files from cache: [1]: "138307".
biodb.TRACE[2025-03-06 23:45:17.602][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-03-06 23:45:17.604][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-03-06 23:45:17.606][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-06 23:45:17.608][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-03-06 23:45:17.610][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-03-06 23:45:17.612][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-03-06 23:45:17.616][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:17.618][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:17.620][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:17.636][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:17.638][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:17.639][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:17.641][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:17.644][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=138307".
biodb.DEBUG[2025-03-06 23:45:17.649][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-03-06 23:45:17.651][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-03-06 23:45:17.653][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=138307".
biodb.TRACE[2025-03-06 23:45:17.985][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=138307).
biodb.DEBUG[2025-03-06 23:45:18.299][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-03-06 23:45:18.302][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a2610bdf009c6327ccf7d519fff16ded.content"
biodb.TRACE[2025-03-06 23:45:18.308][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a2610bdf009c6327ccf7d519fff16ded.request"
biodb.TRACE[2025-03-06 23:45:18.312][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml"
biodb.DEBUG[2025-03-06 23:45:18.314][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-03-06 23:45:18.316][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-06 23:45:18.317][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-06 23:45:18.319][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:18.321][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:18.322][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:18.343][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:18.345][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:18.346][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:18.347][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.TRACE[2025-03-06 23:45:18.350][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:18.352][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:18.354][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:18.355][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:18.357][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:18.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:18.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:18.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:18.362][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 23:45:18.363][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 23:45:18.364][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:18.365][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:18.367][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 23:45:18.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 23:45:18.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:18.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:18.372][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 23:45:18.373][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 23:45:18.374][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:18.376][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:18.377][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 23:45:18.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 23:45:18.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:18.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:18.382][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 23:45:18.383][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 23:45:18.384][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:18.386][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:18.388][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 23:45:18.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 23:45:18.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:18.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:18.393][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 23:45:18.394][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 23:45:18.395][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:18.396][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:18.398][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 23:45:18.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 23:45:18.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:18.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:18.405][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:45:18.407][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:45:18.409][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:18.410][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:18.412][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 23:45:18.414][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:18.416][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:18.418][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:18.420][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 23:45:18.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:18.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:18.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:18.425][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:18.427][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:18.428][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:18.429][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:18.430][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:18.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:18.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:18.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:18.435][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-06 23:45:18.436][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 23:45:18.438][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:18.439][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:18.440][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 23:45:18.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 23:45:18.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:18.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:18.445][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 23:45:18.447][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 23:45:18.448][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:18.449][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:18.450][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 23:45:18.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 23:45:18.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:18.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:18.455][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 23:45:18.457][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 23:45:18.458][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:18.459][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:18.460][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 23:45:18.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 23:45:18.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:18.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:18.465][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:18.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:18.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:18.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:18.470][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:18.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:18.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:18.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:18.475][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:18.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:18.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:18.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:18.480][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:18.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:18.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:18.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:18.484][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:18.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:18.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:18.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:18.489][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:18.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:18.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:18.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:18.496][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:18.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:18.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:18.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:18.503][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:18.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:18.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:18.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:18.508][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:18.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:18.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:18.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:18.516][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:18.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:18.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:18.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:18.521][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2025-03-06 23:45:18.522][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:18.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:18.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:18.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:18.527][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:18.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:18.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:18.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:18.533][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:18.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:18.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:18.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:18.540][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:18.542][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:18.544][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:18.557][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:18.559][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:18.560][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:18.561][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:18.562][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2025-03-06 23:45:18.564][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-06 23:45:18.565][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176803".
biodb.TRACE[2025-03-06 23:45:18.567][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-03-06 23:45:18.569][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-03-06 23:45:18.570][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-06 23:45:18.571][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-03-06 23:45:18.572][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-03-06 23:45:18.573][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-03-06 23:45:18.576][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:18.577][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:18.578][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:18.589][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:18.590][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:18.591][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:18.592][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:18.594][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176803".
biodb.DEBUG[2025-03-06 23:45:18.597][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-03-06 23:45:18.598][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-03-06 23:45:18.600][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176803".
biodb.TRACE[2025-03-06 23:45:18.908][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176803).
biodb.DEBUG[2025-03-06 23:45:19.217][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-03-06 23:45:19.220][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/648921bf283f148f1437569ccee0fc41.content"
biodb.TRACE[2025-03-06 23:45:19.225][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/648921bf283f148f1437569ccee0fc41.request"
biodb.TRACE[2025-03-06 23:45:19.228][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml"
biodb.DEBUG[2025-03-06 23:45:19.231][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-03-06 23:45:19.232][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-06 23:45:19.234][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-06 23:45:19.236][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:19.237][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:19.238][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:19.251][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:19.252][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:19.253][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:19.254][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[2025-03-06 23:45:19.257][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:19.259][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:19.261][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:19.263][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:19.265][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:19.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:19.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:19.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:19.270][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 23:45:19.271][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 23:45:19.272][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:19.274][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:19.275][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 23:45:19.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 23:45:19.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:19.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:19.280][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 23:45:19.282][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 23:45:19.283][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:19.284][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:19.286][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 23:45:19.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 23:45:19.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:19.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:19.294][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 23:45:19.295][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 23:45:19.296][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:19.297][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:19.299][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 23:45:19.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 23:45:19.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:19.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:19.304][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 23:45:19.305][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 23:45:19.307][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:19.308][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:19.309][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 23:45:19.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 23:45:19.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:19.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:19.314][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:45:19.315][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:45:19.317][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:19.318][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:19.319][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 23:45:19.321][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:19.322][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:19.323][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:19.325][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 23:45:19.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:19.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:19.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:19.330][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:19.332][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:19.333][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:19.334][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:19.336][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:19.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:19.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:19.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:19.350][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-06 23:45:19.352][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 23:45:19.354][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:19.356][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:19.359][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 23:45:19.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 23:45:19.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:19.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:19.366][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 23:45:19.368][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 23:45:19.369][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:19.370][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:19.372][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 23:45:19.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 23:45:19.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:19.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:19.378][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 23:45:19.379][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 23:45:19.380][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:19.381][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:19.383][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 23:45:19.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 23:45:19.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:19.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:19.388][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:19.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:19.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:19.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:19.392][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:19.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:19.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:19.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:19.397][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:19.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:19.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:19.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:19.402][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:19.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:19.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:19.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:19.407][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:19.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:19.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:19.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:19.412][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:19.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:19.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:19.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:19.417][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:19.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:19.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:19.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:19.425][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:19.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:19.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:19.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:19.433][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:19.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:19.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:19.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:19.441][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:19.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:19.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:19.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:19.449][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2025-03-06 23:45:19.451][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:19.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:19.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:19.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:19.458][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:19.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:19.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:19.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:19.466][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:19.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:19.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:19.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:19.473][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:19.475][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:19.477][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:19.489][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:19.490][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:19.491][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:19.492][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:19.494][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2025-03-06 23:45:19.496][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-06 23:45:19.499][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176962".
biodb.TRACE[2025-03-06 23:45:19.502][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-03-06 23:45:19.504][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-03-06 23:45:19.506][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-06 23:45:19.508][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-03-06 23:45:19.510][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-03-06 23:45:19.512][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-03-06 23:45:19.517][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:19.518][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:19.520][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:19.539][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:19.540][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:19.542][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:19.543][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:19.544][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176962".
biodb.DEBUG[2025-03-06 23:45:19.548][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-03-06 23:45:19.549][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-03-06 23:45:19.550][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176962".
biodb.TRACE[2025-03-06 23:45:19.864][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=176962).
biodb.DEBUG[2025-03-06 23:45:20.183][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-03-06 23:45:20.190][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/881a0b9df4a64ff0258c2dc68959eb26.content"
biodb.TRACE[2025-03-06 23:45:20.195][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/881a0b9df4a64ff0258c2dc68959eb26.request"
biodb.TRACE[2025-03-06 23:45:20.201][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml"
biodb.DEBUG[2025-03-06 23:45:20.205][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-03-06 23:45:20.207][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-06 23:45:20.209][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-06 23:45:20.212][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:20.215][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:20.216][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:20.230][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:20.232][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:20.234][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:20.235][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:20.239][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:20.241][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:20.242][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:20.244][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:20.245][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:20.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:20.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:20.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:20.251][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 23:45:20.252][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 23:45:20.253][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:20.255][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:20.256][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 23:45:20.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 23:45:20.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:20.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:20.262][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 23:45:20.263][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 23:45:20.264][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:20.265][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:20.267][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 23:45:20.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 23:45:20.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:20.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:20.272][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 23:45:20.274][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 23:45:20.275][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:20.276][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:20.278][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 23:45:20.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 23:45:20.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:20.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:20.284][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 23:45:20.285][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 23:45:20.286][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:20.287][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:20.289][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 23:45:20.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 23:45:20.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:20.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:20.295][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:45:20.297][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:45:20.298][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:20.299][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:20.301][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 23:45:20.302][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:20.304][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:20.305][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:20.307][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 23:45:20.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:20.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:20.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:20.312][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:20.314][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:20.315][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:20.316][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:20.318][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:20.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:20.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:20.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:20.323][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-06 23:45:20.325][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 23:45:20.326][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:20.328][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:20.330][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 23:45:20.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 23:45:20.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:20.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:20.338][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 23:45:20.339][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 23:45:20.341][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:20.342][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:20.344][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 23:45:20.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 23:45:20.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:20.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:20.349][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 23:45:20.350][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 23:45:20.352][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:20.353][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:20.355][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 23:45:20.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 23:45:20.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:20.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:20.361][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:20.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:20.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:20.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:20.366][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:20.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:20.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:20.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:20.372][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:20.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:20.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:20.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:20.378][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:20.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:20.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:20.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:20.383][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:20.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:20.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:20.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:20.389][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:20.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:20.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:20.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:20.394][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:20.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:20.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:20.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:20.400][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:20.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:20.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:20.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:20.405][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:20.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:20.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:20.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:20.410][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:20.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:20.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:20.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:20.415][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2025-03-06 23:45:20.417][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:20.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:20.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:20.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:20.422][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:20.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:20.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:20.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:20.427][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:20.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:20.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:20.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:20.432][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:20.433][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:20.435][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:20.453][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:20.454][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:20.456][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:20.457][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:20.458][private$loadEntries] Creating entries from ids [1]: "198655".
biodb.DEBUG[2025-03-06 23:45:20.459][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-06 23:45:20.461][cch$loadFileContent] Trying to load 1 files from cache: [1]: "198655".
biodb.TRACE[2025-03-06 23:45:20.463][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-03-06 23:45:20.464][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-03-06 23:45:20.466][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-06 23:45:20.467][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-03-06 23:45:20.468][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-03-06 23:45:20.470][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-03-06 23:45:20.473][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:20.474][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:20.475][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:20.487][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:20.488][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:20.489][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:20.491][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:20.492][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=198655".
biodb.DEBUG[2025-03-06 23:45:20.495][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-03-06 23:45:20.497][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-03-06 23:45:20.500][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=198655".
biodb.TRACE[2025-03-06 23:45:20.815][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=198655).
biodb.DEBUG[2025-03-06 23:45:21.126][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-03-06 23:45:21.129][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2e175d021d3c86c1362fa584a90fbad.content"
biodb.TRACE[2025-03-06 23:45:21.134][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/f2e175d021d3c86c1362fa584a90fbad.request"
biodb.TRACE[2025-03-06 23:45:21.137][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/198655.xml"
biodb.DEBUG[2025-03-06 23:45:21.140][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-03-06 23:45:21.141][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-06 23:45:21.143][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-06 23:45:21.145][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:21.146][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:21.147][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:21.160][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:21.161][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:21.163][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:21.164][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:21.167][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:21.168][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:21.170][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:21.176][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:21.181][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:21.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:21.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:21.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:21.186][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 23:45:21.188][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 23:45:21.189][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:21.190][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:21.191][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 23:45:21.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 23:45:21.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:21.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:21.196][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 23:45:21.197][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 23:45:21.198][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:21.200][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:21.201][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 23:45:21.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 23:45:21.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:21.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:21.206][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 23:45:21.208][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 23:45:21.209][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:21.210][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:21.211][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 23:45:21.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 23:45:21.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:21.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:21.216][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 23:45:21.217][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 23:45:21.219][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:21.220][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:21.221][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 23:45:21.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 23:45:21.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:21.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:21.226][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:45:21.228][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:45:21.229][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:21.230][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:21.231][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 23:45:21.233][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:21.234][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:21.235][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:21.236][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 23:45:21.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:21.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:21.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:21.242][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:21.243][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:21.244][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:21.246][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:21.247][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:21.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:21.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:21.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:21.252][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-06 23:45:21.253][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 23:45:21.254][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:21.255][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:21.257][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 23:45:21.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 23:45:21.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:21.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:21.262][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 23:45:21.263][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 23:45:21.265][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:21.267][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:21.269][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 23:45:21.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 23:45:21.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:21.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:21.276][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 23:45:21.277][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 23:45:21.278][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:21.279][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:21.281][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 23:45:21.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 23:45:21.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:21.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:21.286][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:21.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:21.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:21.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:21.291][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:21.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:21.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:21.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:21.298][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:21.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:21.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:21.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:21.306][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:21.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:21.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:21.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:21.313][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:21.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:21.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:21.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:21.318][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:21.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:21.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:21.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:21.322][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:21.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:21.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:21.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:21.328][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:21.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:21.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:21.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:21.332][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:21.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:21.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:21.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:21.337][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:21.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:21.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:21.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:21.342][self$createEntryFromContent] Accession numbers: 198655.
biodb.TRACE[2025-03-06 23:45:21.343][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:21.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:21.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:21.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:21.348][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:21.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:21.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:21.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:21.353][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:21.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:21.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:21.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:21.357][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:21.358][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:21.359][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:21.377][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:21.378][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:21.379][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:21.380][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:21.382][private$loadEntries] Creating entries from ids [1]: "215045".
biodb.DEBUG[2025-03-06 23:45:21.383][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-06 23:45:21.385][cch$loadFileContent] Trying to load 1 files from cache: [1]: "215045".
biodb.TRACE[2025-03-06 23:45:21.387][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-03-06 23:45:21.388][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-03-06 23:45:21.389][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-06 23:45:21.391][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-03-06 23:45:21.392][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-03-06 23:45:21.393][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-03-06 23:45:21.396][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:21.397][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:21.398][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:21.405][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:21.406][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:21.407][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:21.408][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:21.410][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=215045".
biodb.DEBUG[2025-03-06 23:45:21.413][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-03-06 23:45:21.414][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-03-06 23:45:21.416][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=215045".
biodb.TRACE[2025-03-06 23:45:21.736][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=215045).
biodb.DEBUG[2025-03-06 23:45:22.054][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-03-06 23:45:22.058][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5fb598055294db64f197c61a6e36b01a.content"
biodb.TRACE[2025-03-06 23:45:22.063][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/5fb598055294db64f197c61a6e36b01a.request"
biodb.TRACE[2025-03-06 23:45:22.067][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/215045.xml"
biodb.DEBUG[2025-03-06 23:45:22.069][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-03-06 23:45:22.071][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-06 23:45:22.072][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-06 23:45:22.074][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:22.075][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:22.076][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:22.094][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:22.095][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:22.096][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:22.097][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:22.101][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:22.102][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:22.103][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.104][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:22.106][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:22.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:22.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:22.111][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 23:45:22.112][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 23:45:22.113][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.114][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:22.116][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 23:45:22.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 23:45:22.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:22.122][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 23:45:22.124][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 23:45:22.125][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.127][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:22.129][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 23:45:22.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 23:45:22.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:22.134][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 23:45:22.135][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 23:45:22.137][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.139][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:22.141][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 23:45:22.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 23:45:22.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:22.146][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 23:45:22.147][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 23:45:22.148][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.150][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:22.151][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 23:45:22.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 23:45:22.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:22.156][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:45:22.157][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:45:22.158][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.160][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:22.161][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 23:45:22.163][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.164][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.165][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:22.167][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 23:45:22.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:22.172][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:22.173][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:22.174][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.175][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:22.177][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:22.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:22.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:22.182][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-06 23:45:22.183][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 23:45:22.184][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.186][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:22.187][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 23:45:22.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 23:45:22.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:22.192][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 23:45:22.194][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 23:45:22.195][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.196][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:22.198][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 23:45:22.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 23:45:22.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:22.203][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 23:45:22.204][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 23:45:22.205][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.206][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:22.208][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 23:45:22.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 23:45:22.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:22.213][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:22.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:22.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:22.218][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:22.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:22.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:22.223][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:22.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:22.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:22.229][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:22.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:22.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:22.235][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:22.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:22.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:22.240][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:22.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:22.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:22.248][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:22.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:22.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:22.255][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:22.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:22.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:22.260][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:22.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:22.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:22.265][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:22.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:22.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:22.273][self$createEntryFromContent] Accession numbers: 215045.
biodb.TRACE[2025-03-06 23:45:22.275][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:22.283][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:22.289][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:22.373][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-03-06 23:45:22.377][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-06 23:45:22.379][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-03-06 23:45:22.380][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 23:45:22.382][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-03-06 23:45:22.386][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:22.387][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:22.388][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:22.496][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:22.498][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:22.499][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:22.500][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:22.501][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:22.507][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:22.511][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:22.516][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:22.518][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:22.519][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:22.526][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:22.527][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:22.528][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:22.530][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:22.531][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:22.536][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:22.541][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:22.546][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:22.552][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:22.559][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:22.561][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:22.562][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:22.579][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:22.580][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:22.582][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:22.583][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:22.584][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:22.589][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:22.594][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:22.599][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:22.604][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:22.608][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:22.609][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:22.611][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:22.622][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:22.623][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:22.624][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:22.625][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:22.627][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:22.632][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:22.637][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:22.641][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:22.647][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:22.652][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:22.653][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:22.654][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:22.665][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:22.667][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:22.668][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:22.669][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:22.670][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:22.675][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:22.680][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:22.685][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:22.686][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:22.687][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:22.693][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:22.694][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:22.696][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:22.697][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:22.698][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:22.703][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:22.708][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:22.712][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:22.713][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:22.714][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:22.721][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:22.722][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:22.723][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:22.725][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:22.726][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:22.731][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:22.736][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:22.741][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:22.742][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:22.743][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:22.751][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:22.753][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:22.754][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:22.755][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:22.756][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:22.761][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:22.766][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:22.773][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:22.774][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:22.775][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:22.790][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:22.791][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:22.792][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:22.794][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:22.795][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:22.801][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:22.806][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:22.811][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:22.812][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:22.814][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:22.824][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:22.826][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:22.827][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:22.828][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:22.829][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:22.834][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:22.839][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:22.844][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:22.845][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:22.846][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:22.861][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:22.862][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:22.863][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:22.864][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:22.866][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:22.871][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:22.876][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:22.881][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:22.882][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:22.883][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:22.905][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:22.907][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:22.909][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:22.910][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:22.912][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:22.918][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:22.924][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:22.929][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:22.930][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:22.931][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:22.952][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:22.954][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:22.956][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:22.958][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:22.960][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:22.968][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:22.976][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:22.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:22.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:22.984][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:22.985][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:22.987][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:23.005][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:23.006][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:23.008][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:23.009][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:23.010][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:23.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:23.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:23.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:23.016][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:23.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:23.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:23.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:23.021][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:23.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:23.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:23.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:23.026][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:23.027][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:23.028][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:23.046][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:23.047][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:23.048][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:23.049][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:23.051][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:23.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:23.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:23.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:23.057][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:23.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:23.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:23.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:23.065][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:23.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:23.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:23.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:23.072][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:23.074][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:23.075][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:23.102][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:23.103][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:23.105][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:23.106][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:23.107][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:23.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:23.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:23.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:23.112][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:23.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:23.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:23.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:23.117][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:23.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:23.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:23.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:23.122][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:23.123][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:23.124][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:23.136][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:23.138][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:23.139][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:23.140][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:23.141][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:23.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:23.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:23.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:23.146][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:23.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:23.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:23.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:23.151][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:23.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:23.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:23.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:23.156][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:23.157][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:23.158][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:23.169][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:23.170][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:23.171][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:23.173][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:23.174][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:23.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:23.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:23.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:23.179][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:23.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:23.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:23.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:23.184][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:23.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:23.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:23.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:23.189][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:23.190][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:23.191][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:23.210][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:23.213][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:23.214][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:23.216][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:23.219][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:23.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:23.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:23.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:23.227][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:23.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:23.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:23.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:23.234][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:23.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:23.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:23.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:23.242][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:23.244][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:23.245][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:23.258][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:23.259][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:23.260][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:23.262][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:23.263][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:23.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:23.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:23.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:23.268][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:23.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:23.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:23.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:23.273][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:23.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:23.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:23.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:23.308][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:23.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:23.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:23.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:23.313][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:23.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:23.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:23.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:23.318][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:23.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:23.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:23.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:23.323][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:23.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:23.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:23.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:23.328][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:23.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:23.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:23.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:23.355][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.INFO [2025-03-06 23:45:23.359][self$getFolderPath] Create cache folder "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649" for "chebi-0c5076ac2a43d16dbce503a44b09f649".
biodb.DEBUG[2025-03-06 23:45:23.361][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-03-06 23:45:23.362][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-03-06 23:45:23.364][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-03-06 23:45:23.673][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-03-06 23:45:23.999][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-03-06 23:45:24.002][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c5171beada848a87ef2ffa10427d9be3.content"
biodb.TRACE[2025-03-06 23:45:24.008][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c5171beada848a87ef2ffa10427d9be3.request"
biodb.DEBUG[2025-03-06 23:45:24.014][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-03-06 23:45:24.020][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-03-06 23:45:24.022][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-03-06 23:45:24.024][private$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[2025-03-06 23:45:24.339][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[2025-03-06 23:45:24.652][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-03-06 23:45:24.655][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/750e63ff76a843f016511fa71c89113e.content"
biodb.TRACE[2025-03-06 23:45:24.660][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/750e63ff76a843f016511fa71c89113e.request"
biodb.DEBUG[2025-03-06 23:45:24.664][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:24.665][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:24.666][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:24.676][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:24.677][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:24.679][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:24.680][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[2025-03-06 23:45:24.681][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2025-03-06 23:45:24.682][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-06 23:45:24.684][cch$loadFileContent] Trying to load 1 files from cache: [1]: "4648".
biodb.TRACE[2025-03-06 23:45:24.686][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-03-06 23:45:24.687][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-03-06 23:45:24.689][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-06 23:45:24.690][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-03-06 23:45:24.691][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-03-06 23:45:24.692][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-03-06 23:45:24.695][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:24.696][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:24.697][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:24.704][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:24.705][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:24.707][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:24.708][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[2025-03-06 23:45:24.709][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=4648".
biodb.DEBUG[2025-03-06 23:45:24.713][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-03-06 23:45:24.714][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-03-06 23:45:24.715][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=4648".
biodb.TRACE[2025-03-06 23:45:25.021][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=4648).
biodb.DEBUG[2025-03-06 23:45:25.360][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-03-06 23:45:25.363][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/844829d8afb6d338ebac906e62f6cb8e.content"
biodb.TRACE[2025-03-06 23:45:25.368][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/844829d8afb6d338ebac906e62f6cb8e.request"
biodb.TRACE[2025-03-06 23:45:25.371][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml"
biodb.DEBUG[2025-03-06 23:45:25.374][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-03-06 23:45:25.375][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-06 23:45:25.377][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-06 23:45:25.379][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:25.380][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:25.381][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:25.388][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:25.389][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:25.390][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:25.391][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:25.395][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:25.396][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:25.397][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:25.398][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:25.400][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:25.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:25.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:25.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:25.405][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 23:45:25.406][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 23:45:25.407][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:25.408][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:25.410][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 23:45:25.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 23:45:25.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:25.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:25.415][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 23:45:25.416][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 23:45:25.417][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:25.418][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:25.420][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 23:45:25.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 23:45:25.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:25.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:25.425][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 23:45:25.426][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 23:45:25.427][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:25.428][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:25.430][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 23:45:25.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 23:45:25.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:25.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:25.435][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 23:45:25.436][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 23:45:25.437][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:25.438][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:25.440][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 23:45:25.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 23:45:25.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:25.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:25.445][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:45:25.447][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:45:25.448][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:25.450][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:25.452][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:45:25.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:45:25.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:25.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:25.459][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 23:45:25.460][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:25.461][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:25.463][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:25.464][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 23:45:25.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:25.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:25.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:25.480][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:25.481][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:25.482][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:25.483][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:25.485][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:25.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:25.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:25.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:25.490][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-06 23:45:25.491][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 23:45:25.492][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:25.493][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:25.495][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 23:45:25.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 23:45:25.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:25.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:25.500][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 23:45:25.501][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 23:45:25.502][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:25.503][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:25.505][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 23:45:25.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 23:45:25.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:25.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:25.510][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 23:45:25.511][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 23:45:25.512][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:25.513][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:25.515][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 23:45:25.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 23:45:25.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:25.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:25.520][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:25.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:25.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:25.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:25.525][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:25.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:25.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:25.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:25.529][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:25.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:25.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:25.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:25.534][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:25.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:25.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:25.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:25.539][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:25.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:25.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:25.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:25.544][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:25.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:25.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:25.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:25.549][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:25.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:25.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:25.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:25.554][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:25.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:25.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:25.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:25.559][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:25.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:25.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:25.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:25.564][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:25.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:25.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:25.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:25.569][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2025-03-06 23:45:25.570][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:25.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:25.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:25.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:25.577][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:25.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:25.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:25.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:25.585][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:25.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:25.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:25.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:25.592][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:25.593][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:25.594][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:25.606][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:25.608][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:25.609][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:25.610][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:25.612][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:25.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:25.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:25.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:25.617][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:25.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:25.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:25.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:25.622][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:25.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:25.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:25.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:25.627][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:25.628][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:25.629][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:25.639][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:25.641][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:25.642][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:25.643][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:25.645][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2025-03-06 23:45:25.646][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-06 23:45:25.648][cch$loadFileContent] Trying to load 1 files from cache: [1]: "62447".
biodb.TRACE[2025-03-06 23:45:25.650][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-03-06 23:45:25.652][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-03-06 23:45:25.654][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-06 23:45:25.656][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-03-06 23:45:25.658][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-03-06 23:45:25.659][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-03-06 23:45:25.662][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:25.663][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:25.665][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:25.671][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:25.673][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:25.674][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:25.676][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:25.677][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=62447".
biodb.DEBUG[2025-03-06 23:45:25.680][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-03-06 23:45:25.682][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-03-06 23:45:25.683][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=62447".
biodb.TRACE[2025-03-06 23:45:25.988][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=62447).
biodb.DEBUG[2025-03-06 23:45:26.302][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-03-06 23:45:26.307][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ceadc6ac0ce91f601616e22be7c76851.content"
biodb.TRACE[2025-03-06 23:45:26.314][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/ceadc6ac0ce91f601616e22be7c76851.request"
biodb.TRACE[2025-03-06 23:45:26.319][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml"
biodb.DEBUG[2025-03-06 23:45:26.323][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-03-06 23:45:26.325][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-06 23:45:26.328][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-06 23:45:26.331][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:26.333][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:26.335][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:26.349][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:26.351][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:26.352][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:26.353][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:26.356][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:26.357][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:26.359][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:26.361][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:26.364][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:26.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:26.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:26.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:26.372][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 23:45:26.373][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 23:45:26.375][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:26.376][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:26.377][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 23:45:26.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 23:45:26.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:26.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:26.383][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 23:45:26.384][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 23:45:26.385][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:26.386][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:26.388][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 23:45:26.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 23:45:26.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:26.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:26.393][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 23:45:26.394][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 23:45:26.396][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:26.397][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:26.398][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 23:45:26.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 23:45:26.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:26.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:26.403][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 23:45:26.405][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 23:45:26.406][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:26.407][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:26.409][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 23:45:26.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 23:45:26.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:26.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:26.414][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:45:26.415][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:45:26.416][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:26.417][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:26.419][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 23:45:26.420][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:26.421][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:26.423][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:26.424][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 23:45:26.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:26.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:26.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:26.429][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:26.430][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:26.431][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:26.433][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:26.434][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:26.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:26.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:26.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:26.439][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-06 23:45:26.440][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 23:45:26.441][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:26.442][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:26.444][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 23:45:26.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 23:45:26.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:26.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:26.449][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 23:45:26.450][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 23:45:26.452][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:26.453][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:26.454][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 23:45:26.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 23:45:26.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:26.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:26.459][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 23:45:26.460][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 23:45:26.461][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:26.463][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:26.465][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 23:45:26.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 23:45:26.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:26.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:26.473][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:26.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:26.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:26.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:26.480][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:26.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:26.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:26.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:26.487][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:26.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:26.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:26.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:26.494][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:26.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:26.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:26.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:26.500][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:26.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:26.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:26.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:26.504][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:26.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:26.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:26.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:26.509][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:26.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:26.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:26.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:26.515][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:26.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:26.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:26.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:26.520][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:26.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:26.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:26.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:26.525][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:26.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:26.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:26.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:26.529][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2025-03-06 23:45:26.531][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:26.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:26.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:26.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:26.536][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:26.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:26.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:26.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:26.540][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:26.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:26.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:26.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:26.615][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[2025-03-06 23:45:26.621][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-03-06 23:45:26.623][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-03-06 23:45:26.627][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL%20NAMES&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-03-06 23:45:27.186][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL%20NAMES&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-03-06 23:45:27.718][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.INFO [2025-03-06 23:45:27.720][self$getFolderPath] Create cache folder "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649" for "chebi-0c5076ac2a43d16dbce503a44b09f649".
biodb.TRACE[2025-03-06 23:45:27.723][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content"
biodb.TRACE[2025-03-06 23:45:27.728][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.request"
biodb.DEBUG[2025-03-06 23:45:27.732][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:27.739][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:27.744][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:27.753][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:27.754][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:27.755][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:27.756][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:27.758][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:27.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:27.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:27.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:27.763][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:27.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:27.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:27.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:27.767][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:27.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:27.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:27.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:27.772][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:27.773][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:27.774][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:27.781][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:27.782][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:27.783][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:27.784][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:27.786][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:27.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:27.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:27.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:27.791][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:27.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:27.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:27.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:27.796][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:27.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:27.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:27.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:27.801][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:27.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:27.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:27.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:27.805][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:27.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:27.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:27.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:27.810][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:27.812][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:27.813][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:27.852][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:27.853][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:27.854][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:27.855][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.TRACE[2025-03-06 23:45:27.857][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:27.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:27.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:27.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:27.861][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:27.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:27.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:27.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:27.866][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:27.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:27.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:27.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:27.871][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:27.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:27.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:27.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:27.876][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:27.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:27.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:27.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:27.880][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:27.882][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:27.883][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:27.890][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:27.892][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:27.893][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:27.894][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:27.896][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:27.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:27.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:27.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:27.900][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:27.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:27.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:27.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:27.905][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:27.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:27.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:27.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:27.910][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:27.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:27.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:27.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:27.915][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:27.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:27.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:27.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:27.920][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:27.921][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:27.922][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:27.979][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:27.980][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:27.981][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:27.982][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:27.984][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:27.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:27.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:27.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:27.992][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:27.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:27.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:27.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:28.000][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:28.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:28.006][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:28.007][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:28.008][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:28.023][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:28.025][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:28.026][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:28.028][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:28.031][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:28.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:28.038][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:28.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:28.045][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:28.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:28.053][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:28.054][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:28.056][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:28.071][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:28.072][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:28.073][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:28.074][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:28.076][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:28.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:28.081][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:28.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:28.085][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:28.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:28.090][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:28.091][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:28.092][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:28.108][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:28.110][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:28.112][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:28.114][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[2025-03-06 23:45:28.116][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:28.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:28.120][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:28.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:28.125][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:28.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:28.130][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:28.131][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:28.132][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:28.147][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:28.148][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:28.149][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:28.150][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:28.152][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:28.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:28.156][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:28.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:28.161][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:28.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:28.166][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:28.167][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:28.168][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:28.207][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:28.209][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:28.210][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:28.211][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:28.212][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:28.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:28.217][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:28.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:28.222][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:28.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:28.227][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:28.228][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:28.229][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:28.235][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:28.237][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:28.238][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:28.239][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:28.240][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:28.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:28.245][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:28.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:28.250][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:28.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:28.255][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:28.256][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:28.257][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:28.271][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:28.272][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:28.273][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:28.274][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:28.276][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:28.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:28.281][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:28.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:28.286][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:28.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:28.290][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:28.291][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:28.292][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:28.310][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:28.313][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:28.315][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:28.317][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:28.319][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:28.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:28.327][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:28.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:28.334][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:28.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:28.342][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:28.344][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:28.345][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:28.364][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:28.366][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:28.369][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:28.371][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.TRACE[2025-03-06 23:45:28.373][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:28.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:28.379][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:28.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:28.384][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:28.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:28.389][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:28.390][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:28.391][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:28.398][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:28.399][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:28.400][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:28.401][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:28.403][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:28.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:28.409][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:28.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:28.420][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:28.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:28.425][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:28.426][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:28.427][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:28.457][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:28.458][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:28.459][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:28.460][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:28.462][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:28.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:28.467][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:28.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:28.472][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:28.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:28.477][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:28.478][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:28.479][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:28.494][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:28.495][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:28.496][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:28.497][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:28.499][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:28.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:28.504][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:28.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:28.509][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:28.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:28.514][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:28.515][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:28.516][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:28.527][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:28.528][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:28.530][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:28.531][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:28.532][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:28.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:28.537][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:28.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:28.542][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:28.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:28.546][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:28.548][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:28.549][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:28.556][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:28.557][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:28.558][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:28.559][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:28.561][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:28.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:28.565][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:28.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:28.570][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:28.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:28.575][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:28.576][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:28.577][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:28.588][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:28.590][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:28.591][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:28.592][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:28.593][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:28.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:28.599][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:28.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:28.603][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:28.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:28.641][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[2025-03-06 23:45:28.645][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-06 23:45:28.647][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-03-06 23:45:28.649][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 23:45:28.654][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-03-06 23:45:28.657][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:28.659][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:28.661][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:28.690][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:28.691][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:28.692][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:28.693][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:28.695][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:28.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:28.700][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:28.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:28.704][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:28.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:28.709][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:28.710][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:28.711][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:28.726][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:28.727][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:28.728][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:28.730][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:28.731][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:28.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:28.737][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:28.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:28.743][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:28.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:28.748][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:28.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:28.753][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:28.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:28.757][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:28.758][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:28.760][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:28.770][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:28.772][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:28.773][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:28.774][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[2025-03-06 23:45:28.776][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:28.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:28.781][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:28.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:28.788][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:28.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:28.793][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:28.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:28.798][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:28.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:28.805][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:28.806][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:28.807][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:28.814][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:28.815][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:28.817][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:28.818][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:28.819][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:28.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:28.825][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:28.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:28.831][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:28.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:28.839][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:28.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:28.846][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:28.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:28.854][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:28.855][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:28.857][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:28.874][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:28.876][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:28.877][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:28.879][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:28.881][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:28.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:28.890][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:28.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:28.896][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:28.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:28.901][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:28.902][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:28.903][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:28.921][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:28.923][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:28.924][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:28.925][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:28.927][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:28.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:28.932][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:28.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:28.937][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:28.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:28.941][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:28.943][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:28.944][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:28.952][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:28.954][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:28.955][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:28.956][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:28.958][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:28.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:28.962][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:28.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:28.967][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:28.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:28.972][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:28.973][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:28.974][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:28.981][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:28.983][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:28.984][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:28.985][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:28.987][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:28.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:28.991][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:28.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:28.996][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:28.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:29.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:29.001][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:29.003][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:29.004][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:29.019][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:29.020][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:29.022][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:29.028][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:29.030][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:29.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:29.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:29.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:29.036][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:29.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:29.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:29.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:29.044][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:29.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:29.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:29.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:29.052][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:29.053][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:29.055][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:29.066][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:29.068][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:29.070][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:29.071][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:29.074][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:29.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:29.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:29.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:29.081][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:29.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:29.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:29.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:29.089][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:29.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:29.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:29.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:29.096][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:29.098][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:29.100][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:29.115][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:29.116][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:29.118][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:29.119][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[2025-03-06 23:45:29.120][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:29.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:29.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:29.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:29.125][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:29.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:29.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:29.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:29.132][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:29.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:29.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:29.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:29.137][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:29.138][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:29.139][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:29.152][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:29.154][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:29.156][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:29.157][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:29.160][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:29.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:29.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:29.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:29.167][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:29.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:29.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:29.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:29.175][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:29.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:29.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:29.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:29.180][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:29.181][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:29.182][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:29.190][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:29.192][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:29.193][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:29.194][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.TRACE[2025-03-06 23:45:29.195][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:29.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:29.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:29.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:29.200][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:29.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:29.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:29.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:29.205][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:29.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:29.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:29.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:29.210][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:29.211][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:29.212][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:29.219][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:29.220][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:29.221][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:29.222][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:29.223][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:29.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:29.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:29.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:29.228][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:29.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:29.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:29.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:29.233][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:29.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:29.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:29.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:29.238][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:29.239][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:29.240][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:29.246][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:29.248][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:29.249][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:29.250][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[2025-03-06 23:45:29.251][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:29.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:29.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:29.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:29.256][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:29.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:29.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:29.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:29.261][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:29.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:29.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:29.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:29.265][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:29.267][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:29.268][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:29.275][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:29.276][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:29.277][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:29.278][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:29.279][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:29.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:29.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:29.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:29.284][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:29.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:29.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:29.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:29.289][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:29.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:29.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:29.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:29.295][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:29.296][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:29.297][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:29.305][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:29.307][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:29.308][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:29.309][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[2025-03-06 23:45:29.310][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:29.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:29.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:29.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:29.315][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:29.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:29.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:29.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:29.320][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:29.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:29.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:29.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:29.325][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:29.326][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:29.327][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:29.334][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:29.336][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:29.337][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:29.338][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:29.339][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:29.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:29.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:29.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:29.344][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:29.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:29.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:29.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:29.349][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:29.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:29.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:29.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:29.354][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:29.355][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:29.356][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:29.363][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:29.364][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:29.365][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:29.366][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:29.368][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:29.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:29.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:29.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:29.373][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:29.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:29.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:29.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:29.378][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:29.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:29.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:29.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:29.383][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:29.384][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:29.385][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:29.392][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:29.394][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:29.395][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:29.396][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:29.397][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:29.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:29.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:29.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:29.403][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:29.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:29.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:29.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:29.408][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:29.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:29.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:29.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:29.449][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-03-06 23:45:29.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-03-06 23:45:29.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:29.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-03-06 23:45:29.468][biodb::testThat]
biodb.INFO [2025-03-06 23:45:29.470][biodb::testThat] Running test function test_annotateMzValues_input_vector (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2025-03-06 23:45:29.471][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-06 23:45:29.473][biodb::testThat]
biodb.TRACE[2025-03-06 23:45:29.479][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-06 23:45:29.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-06 23:45:29.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:29.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:29.487][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:29.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:29.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:29.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:29.496][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:29.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:29.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:29.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:29.504][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:29.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:29.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:29.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:29.511][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:29.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:29.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:29.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:29.524][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:29.526][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:29.528][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:29.548][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:29.550][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:29.551][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:29.552][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:29.556][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[2025-03-06 23:45:29.559][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-03-06 23:45:29.561][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-03-06 23:45:29.563][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-03-06 23:45:29.884][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72%2A&searchCategory=MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-03-06 23:45:30.194][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-03-06 23:45:30.197][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content"
biodb.TRACE[2025-03-06 23:45:30.202][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.request"
biodb.DEBUG[2025-03-06 23:45:30.207][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:30.209][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:30.210][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:30.221][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:30.222][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:30.224][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:30.226][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:30.228][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:30.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:30.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:30.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:30.246][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:30.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:30.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:30.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:30.251][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:30.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:30.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:30.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:30.257][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-03-06 23:45:30.261][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-03-06 23:45:30.262][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-03-06 23:45:30.264][private$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[2025-03-06 23:45:30.584][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[2025-03-06 23:45:30.894][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-03-06 23:45:30.897][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content"
biodb.TRACE[2025-03-06 23:45:30.902][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.request"
biodb.DEBUG[2025-03-06 23:45:30.907][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:30.908][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:30.909][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:30.916][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:30.918][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:30.919][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:30.920][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:30.922][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:30.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:30.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:30.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:30.927][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:30.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:30.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:30.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:30.933][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:30.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:30.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:30.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:30.938][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:30.939][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:30.940][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:30.951][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:30.952][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:30.953][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:30.955][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:30.956][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:30.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:30.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:30.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:30.961][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:30.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:30.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:30.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:30.966][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:30.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:30.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:30.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:30.971][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-03-06 23:45:30.973][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:30.974][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:30.975][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:30.982][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:30.983][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:30.984][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:30.986][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:30.988][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:30.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:30.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:30.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:30.992][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:30.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:30.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:30.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:30.997][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 23:45:30.998][private$selectFields]
biodb.TRACE[2025-03-06 23:45:30.999][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-06 23:45:31.001][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-06 23:45:31.002][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 23:45:31.003][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:31.004][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:31.005][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:31.006][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:31.008][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:31.009][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:31.010][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:31.011][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:31.012][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 23:45:31.014][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 23:45:31.015][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:31.016][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:31.017][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:31.018][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:31.020][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-06 23:45:31.021][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:31.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:31.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:31.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:31.028][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:31.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:31.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:31.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:31.035][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:31.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:31.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:31.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:31.052][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-03-06 23:45:31.053][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:31.055][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:31.056][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:31.070][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:31.072][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:31.073][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:31.075][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:31.078][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:31.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:31.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:31.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:31.083][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:31.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:31.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:31.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:31.090][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 23:45:31.092][private$selectFields]
biodb.TRACE[2025-03-06 23:45:31.094][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-06 23:45:31.096][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-06 23:45:31.097][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 23:45:31.098][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:31.100][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:31.101][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:31.102][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:31.103][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:31.105][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:31.106][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:31.107][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:31.108][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 23:45:31.109][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 23:45:31.110][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:31.112][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:31.113][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:31.114][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:31.115][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-06 23:45:31.116][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:31.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:31.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:31.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:31.123][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:31.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:31.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:31.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:31.130][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:31.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:31.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:31.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:31.138][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-03-06 23:45:31.139][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:31.140][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:31.141][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:31.153][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:31.155][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:31.156][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:31.157][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:31.159][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:31.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:31.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:31.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:31.164][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:31.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:31.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:31.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:31.169][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 23:45:31.171][private$selectFields]
biodb.TRACE[2025-03-06 23:45:31.172][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-06 23:45:31.174][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-06 23:45:31.175][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 23:45:31.176][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:31.178][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:31.179][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:31.180][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:31.181][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:31.183][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:31.184][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:31.185][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:31.186][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 23:45:31.187][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 23:45:31.189][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:31.190][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:31.191][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:31.192][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:31.193][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-06 23:45:31.195][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:31.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:31.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:31.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:31.200][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:31.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:31.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:31.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:31.205][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:31.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:31.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:31.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:31.210][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-03-06 23:45:31.211][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-03-06 23:45:31.212][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-03-06 23:45:31.223][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:31.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:31.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:31.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:31.229][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:31.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:31.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:31.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:31.233][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:31.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:31.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:31.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:31.238][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:31.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:31.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:31.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:31.290][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:31.291][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:31.292][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:31.303][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:31.305][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:31.306][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:31.307][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:31.310][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[2025-03-06 23:45:31.322][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-03-06 23:45:31.324][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-03-06 23:45:31.326][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL".
biodb.TRACE[2025-03-06 23:45:31.642][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38%2A&searchCategory=MONOISOTOPIC%20MASS&maximumResults=0&starsCategory=ALL).
biodb.DEBUG[2025-03-06 23:45:31.945][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-03-06 23:45:31.949][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content"
biodb.TRACE[2025-03-06 23:45:31.957][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.request"
biodb.DEBUG[2025-03-06 23:45:31.963][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-03-06 23:45:31.969][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-03-06 23:45:31.972][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-03-06 23:45:31.975][private$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[2025-03-06 23:45:32.296][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[2025-03-06 23:45:32.633][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-03-06 23:45:32.636][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content"
biodb.TRACE[2025-03-06 23:45:32.641][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.request"
biodb.DEBUG[2025-03-06 23:45:32.645][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:32.646][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:32.648][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:32.655][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:32.656][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:32.657][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:32.659][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:32.660][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:32.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:32.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:32.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:32.665][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:32.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:32.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:32.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:32.670][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:32.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:32.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:32.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:32.678][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:32.679][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:32.681][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:32.695][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:32.696][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:32.697][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:32.698][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:32.700][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:32.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:32.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:32.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:32.705][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:32.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:32.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:32.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:32.710][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:32.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:32.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:32.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:32.714][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:32.716][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:32.717][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:32.732][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:32.733][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:32.735][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:32.736][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[2025-03-06 23:45:32.738][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:32.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:32.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:32.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:32.742][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:32.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:32.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:32.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:32.747][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:32.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:32.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:32.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:32.772][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-03-06 23:45:32.792][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:32.793][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:32.794][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:32.801][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:32.802][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:32.804][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:32.805][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:32.806][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:32.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:32.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:32.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:32.811][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:32.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:32.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:32.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:32.816][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 23:45:32.818][private$selectFields]
biodb.TRACE[2025-03-06 23:45:32.819][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-06 23:45:32.820][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-06 23:45:32.821][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 23:45:32.822][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:32.824][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:32.825][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:32.826][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:32.827][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:32.828][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:32.829][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:32.831][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:32.832][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 23:45:32.833][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 23:45:32.834][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:32.835][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:32.836][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:32.838][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:32.839][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-06 23:45:32.840][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:32.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:32.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:32.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:32.845][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:32.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:32.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:32.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:32.850][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:32.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:32.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:32.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:32.855][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-03-06 23:45:32.856][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:32.857][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:32.858][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:32.873][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:32.875][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:32.876][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:32.877][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:32.889][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:32.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:32.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:32.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:32.894][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:32.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:32.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:32.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:32.922][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 23:45:32.923][private$selectFields]
biodb.TRACE[2025-03-06 23:45:32.925][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-06 23:45:32.926][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-06 23:45:32.927][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 23:45:32.928][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:32.929][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:32.931][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:32.932][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:32.933][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:32.934][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:32.936][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:32.937][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:32.938][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 23:45:32.949][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 23:45:32.951][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:32.952][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:32.953][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:32.954][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:32.956][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-06 23:45:32.957][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:32.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:32.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:32.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:32.962][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:32.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:32.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:32.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:32.967][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:32.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:32.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:32.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:32.972][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-03-06 23:45:32.973][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:32.974][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:32.975][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:32.991][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:32.992][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:32.994][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:32.995][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:32.996][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:32.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:32.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:33.001][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:33.006][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 23:45:33.007][private$selectFields]
biodb.TRACE[2025-03-06 23:45:33.009][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-06 23:45:33.010][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-06 23:45:33.011][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 23:45:33.012][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.014][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.015][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.016][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:33.018][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.029][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.032][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.034][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:33.036][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 23:45:33.037][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 23:45:33.039][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.040][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.042][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.043][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:33.044][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-06 23:45:33.046][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:33.051][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:33.056][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:33.062][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-03-06 23:45:33.063][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-03-06 23:45:33.064][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-03-06 23:45:33.080][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-03-06 23:45:33.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-03-06 23:45:33.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-03-06 23:45:33.097][biodb::testThat]
biodb.INFO [2025-03-06 23:45:33.099][biodb::testThat] Running test function test_annotateMzValues_ppm_tol (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2025-03-06 23:45:33.100][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-06 23:45:33.101][biodb::testThat]
biodb.TRACE[2025-03-06 23:45:33.105][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-06 23:45:33.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-06 23:45:33.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:33.111][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:33.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:33.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:33.116][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:33.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:33.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:33.120][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:33.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:33.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:33.125][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:33.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:33.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:33.133][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:33.134][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:33.135][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:33.152][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:33.153][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:33.155][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:33.156][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:33.161][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[2025-03-06 23:45:33.166][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-06 23:45:33.168][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-03-06 23:45:33.171][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 23:45:33.174][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-03-06 23:45:33.178][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:33.180][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:33.182][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:33.195][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:33.196][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:33.197][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:33.198][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:33.200][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:33.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:33.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:33.205][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:33.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:33.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:33.212][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:33.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:33.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:33.221][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[2025-03-06 23:45:33.227][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-06 23:45:33.229][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-03-06 23:45:33.232][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 23:45:33.235][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-03-06 23:45:33.238][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:33.239][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:33.240][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:33.258][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:33.259][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:33.260][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:33.262][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:33.263][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:33.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:33.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:33.269][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:33.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:33.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:33.277][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:33.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:33.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:33.285][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:33.286][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:33.288][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:33.299][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:33.300][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:33.301][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:33.302][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.TRACE[2025-03-06 23:45:33.304][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:33.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:33.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:33.308][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:33.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:33.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:33.313][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:33.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:33.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:33.318][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-03-06 23:45:33.320][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:33.321][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:33.322][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:33.334][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:33.336][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:33.338][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:33.340][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[2025-03-06 23:45:33.343][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:33.348][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:33.353][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 23:45:33.354][private$selectFields]
biodb.TRACE[2025-03-06 23:45:33.356][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-06 23:45:33.357][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-06 23:45:33.358][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 23:45:33.359][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.361][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.362][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.363][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:33.364][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.365][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.367][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.368][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:33.369][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 23:45:33.370][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 23:45:33.371][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.372][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.374][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.375][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:33.376][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-06 23:45:33.377][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:33.382][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:33.387][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:33.393][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-03-06 23:45:33.395][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:33.396][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:33.398][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:33.435][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:33.437][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:33.438][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:33.439][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:33.440][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:33.445][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:33.450][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 23:45:33.451][private$selectFields]
biodb.TRACE[2025-03-06 23:45:33.452][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-06 23:45:33.454][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-06 23:45:33.456][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 23:45:33.457][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.459][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.461][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.462][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:33.464][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.465][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.466][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.467][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:33.469][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 23:45:33.470][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 23:45:33.471][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.472][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.473][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.475][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:33.476][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-06 23:45:33.477][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:33.482][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:33.487][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:33.493][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-03-06 23:45:33.494][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:33.495][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:33.497][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:33.504][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:33.505][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:33.506][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:33.507][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:33.509][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:33.514][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:33.519][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 23:45:33.520][private$selectFields]
biodb.TRACE[2025-03-06 23:45:33.521][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-06 23:45:33.522][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-06 23:45:33.523][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 23:45:33.524][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.526][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.527][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.528][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:33.529][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.530][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.531][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.533][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:33.534][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 23:45:33.535][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 23:45:33.536][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.537][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.539][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.540][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:33.541][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-06 23:45:33.542][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:33.547][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:33.552][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:33.557][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-03-06 23:45:33.558][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-03-06 23:45:33.560][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-03-06 23:45:33.570][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:33.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:33.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:33.576][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:33.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:33.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:33.581][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:33.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:33.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:33.586][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:33.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:33.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:33.594][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:33.595][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:33.606][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:33.614][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:33.616][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:33.617][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:33.618][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:33.621][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[2025-03-06 23:45:33.625][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-06 23:45:33.626][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2025-03-06 23:45:33.628][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 23:45:33.630][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2025-03-06 23:45:33.634][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[2025-03-06 23:45:33.637][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-06 23:45:33.639][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2025-03-06 23:45:33.640][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 23:45:33.643][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2025-03-06 23:45:33.646][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:33.647][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:33.648][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:33.654][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:33.656][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:33.657][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:33.658][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[2025-03-06 23:45:33.659][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:33.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:33.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:33.664][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:33.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:33.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:33.669][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:33.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:33.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:33.674][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:33.675][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:33.676][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:33.690][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:33.691][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:33.692][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:33.693][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:33.695][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:33.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:33.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:33.700][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:33.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:33.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:33.704][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:33.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:33.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:33.709][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:33.710][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:33.711][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:33.723][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:33.725][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:33.727][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:33.729][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:33.731][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:33.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:33.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:33.738][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:33.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:33.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:33.744][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:33.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:33.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:33.749][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-03-06 23:45:33.750][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:33.752][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:33.753][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:33.760][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:33.762][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:33.763][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:33.764][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:33.766][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:33.772][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:33.777][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 23:45:33.778][private$selectFields]
biodb.TRACE[2025-03-06 23:45:33.779][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-06 23:45:33.781][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-06 23:45:33.782][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 23:45:33.784][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.787][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.788][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.790][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:33.791][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.792][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.793][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.795][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:33.796][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 23:45:33.797][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 23:45:33.798][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.799][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.801][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.802][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:33.803][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-06 23:45:33.805][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:33.810][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:33.818][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:33.823][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-03-06 23:45:33.825][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:33.826][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:33.827][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:33.839][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:33.840][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:33.841][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:33.842][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:33.844][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:33.848][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:33.853][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 23:45:33.854][private$selectFields]
biodb.TRACE[2025-03-06 23:45:33.855][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-06 23:45:33.856][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-06 23:45:33.858][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 23:45:33.859][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.860][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.861][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.862][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:33.864][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.865][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.866][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.867][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:33.868][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 23:45:33.869][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 23:45:33.871][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.872][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.873][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.874][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:33.875][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-06 23:45:33.876][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:33.881][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:33.886][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:33.891][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-03-06 23:45:33.892][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:33.893][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:33.894][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:33.909][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:33.911][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:33.912][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:33.914][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:33.916][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:33.923][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:33.930][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 23:45:33.931][private$selectFields]
biodb.TRACE[2025-03-06 23:45:33.933][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-06 23:45:33.934][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-06 23:45:33.936][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 23:45:33.937][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.938][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.939][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.941][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:33.942][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.943][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.944][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.946][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:33.947][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 23:45:33.948][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 23:45:33.949][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.951][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.952][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.953][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:33.954][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-06 23:45:33.956][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:33.961][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:33.965][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:33.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:33.971][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-03-06 23:45:33.972][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-03-06 23:45:33.973][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-03-06 23:45:33.993][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-03-06 23:45:33.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-03-06 23:45:33.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:33.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-03-06 23:45:34.004][biodb::testThat]
biodb.INFO [2025-03-06 23:45:34.005][biodb::testThat] Running test function test_annotateMzValues_input_dataframe_untouched (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2025-03-06 23:45:34.006][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-06 23:45:34.008][biodb::testThat]
biodb.TRACE[2025-03-06 23:45:34.012][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-06 23:45:34.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-06 23:45:34.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:34.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:34.017][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:34.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:34.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:34.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:34.022][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:34.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:34.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:34.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:34.027][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:34.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:34.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:34.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:34.032][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:34.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:34.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:34.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:34.041][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:34.042][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:34.043][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:34.056][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:34.058][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:34.060][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:34.061][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.DEBUG[2025-03-06 23:45:34.067][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[2025-03-06 23:45:34.073][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-06 23:45:34.075][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-03-06 23:45:34.078][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 23:45:34.081][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-03-06 23:45:34.084][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:34.085][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:34.086][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:34.093][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:34.095][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:34.096][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:34.097][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:34.098][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:34.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:34.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:34.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:34.104][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:34.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:34.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:34.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:34.108][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:34.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:34.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:34.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:34.114][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[2025-03-06 23:45:34.118][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-06 23:45:34.120][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-03-06 23:45:34.121][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 23:45:34.124][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-03-06 23:45:34.127][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:34.128][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:34.135][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:34.147][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:34.148][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:34.149][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:34.151][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.TRACE[2025-03-06 23:45:34.152][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:34.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:34.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:34.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:34.157][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:34.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:34.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:34.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:34.162][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:34.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:34.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:34.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:34.167][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:34.168][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:34.169][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:34.181][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:34.183][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:34.184][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:34.185][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:34.186][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:34.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:34.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:34.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:34.191][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:34.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:34.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:34.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:34.196][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:34.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:34.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:34.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:34.201][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-03-06 23:45:34.203][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:34.205][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:34.207][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:34.220][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:34.222][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:34.223][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:34.225][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:34.227][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:34.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:34.234][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:34.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:34.239][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 23:45:34.240][private$selectFields]
biodb.TRACE[2025-03-06 23:45:34.241][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-06 23:45:34.243][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-06 23:45:34.244][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 23:45:34.245][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.246][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.247][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:34.249][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:34.250][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.251][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.252][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:34.253][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:34.255][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 23:45:34.256][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 23:45:34.257][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.258][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.259][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:34.260][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:34.262][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-06 23:45:34.263][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:34.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:34.268][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:34.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:34.272][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:34.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:34.278][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-03-06 23:45:34.279][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:34.280][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:34.281][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:34.292][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:34.294][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:34.295][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:34.296][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:34.298][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:34.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:34.303][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:34.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:34.307][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 23:45:34.309][private$selectFields]
biodb.TRACE[2025-03-06 23:45:34.310][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-06 23:45:34.311][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-06 23:45:34.312][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 23:45:34.313][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.314][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.316][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:34.317][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:34.318][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.319][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.320][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:34.321][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:34.323][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 23:45:34.324][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 23:45:34.325][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.326][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.327][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:34.328][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:34.330][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-06 23:45:34.331][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:34.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:34.336][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:34.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:34.341][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:34.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:34.346][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-03-06 23:45:34.347][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:34.349][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:34.350][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:34.357][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:34.358][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:34.359][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:34.360][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.TRACE[2025-03-06 23:45:34.362][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:34.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:34.367][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:34.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:34.371][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 23:45:34.372][private$selectFields]
biodb.TRACE[2025-03-06 23:45:34.374][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-06 23:45:34.375][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-06 23:45:34.376][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 23:45:34.377][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.378][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.379][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:34.381][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:34.382][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.383][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.384][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:34.385][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:34.386][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 23:45:34.388][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 23:45:34.389][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.390][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.391][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:34.392][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:34.394][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-06 23:45:34.395][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:34.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:34.400][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:34.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:34.404][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:34.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:34.410][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-03-06 23:45:34.411][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-03-06 23:45:34.412][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-03-06 23:45:34.453][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:34.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:34.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:34.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:34.461][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:34.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:34.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:34.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:34.468][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:34.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:34.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:34.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:34.473][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:34.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:34.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:34.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:34.482][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:34.484][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:34.485][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:34.497][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:34.498][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:34.499][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:34.501][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:34.504][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[2025-03-06 23:45:34.507][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-06 23:45:34.509][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2025-03-06 23:45:34.511][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 23:45:34.513][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2025-03-06 23:45:34.516][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[2025-03-06 23:45:34.520][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-06 23:45:34.522][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2025-03-06 23:45:34.524][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 23:45:34.526][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2025-03-06 23:45:34.529][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:34.530][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:34.531][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:34.538][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:34.539][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:34.540][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:34.542][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:34.543][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:34.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:34.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:34.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:34.548][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:34.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:34.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:34.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:34.555][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:34.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:34.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:34.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:34.562][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:34.564][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:34.565][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:34.577][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:34.578][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:34.579][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:34.581][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:34.582][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:34.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:34.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:34.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:34.587][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:34.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:34.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:34.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:34.592][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:34.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:34.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:34.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:34.597][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:34.598][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:34.599][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:34.610][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:34.612][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:34.613][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:34.615][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:34.618][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:34.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:34.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:34.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:34.626][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:34.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:34.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:34.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:34.631][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:34.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:34.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:34.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:34.636][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-03-06 23:45:34.639][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:34.640][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:34.642][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:34.656][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:34.657][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:34.659][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:34.660][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:34.661][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:34.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:34.672][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:34.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:34.677][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 23:45:34.678][private$selectFields]
biodb.TRACE[2025-03-06 23:45:34.680][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-06 23:45:34.681][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-06 23:45:34.682][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 23:45:34.683][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.685][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.686][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:34.687][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:34.688][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.689][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.691][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:34.692][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:34.693][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 23:45:34.694][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 23:45:34.695][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.697][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.698][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:34.699][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:34.700][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-06 23:45:34.701][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:34.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:34.706][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:34.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:34.711][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:34.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:34.716][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-03-06 23:45:34.718][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:34.719][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:34.720][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:34.727][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:34.728][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:34.729][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:34.730][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:34.732][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:34.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:34.737][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:34.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:34.742][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 23:45:34.743][private$selectFields]
biodb.TRACE[2025-03-06 23:45:34.744][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-06 23:45:34.745][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-06 23:45:34.746][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 23:45:34.747][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.749][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.750][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:34.751][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:34.752][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.753][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.755][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:34.756][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:34.757][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 23:45:34.759][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 23:45:34.760][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.761][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.762][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:34.763][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:34.765][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-06 23:45:34.766][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:34.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:34.771][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:34.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:34.779][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:34.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:34.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:34.786][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-03-06 23:45:34.788][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:34.789][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:34.790][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:35.009][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:35.011][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:35.012][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:35.013][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.TRACE[2025-03-06 23:45:35.014][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:35.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:35.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:35.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:35.019][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:35.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:35.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:35.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:35.027][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 23:45:35.029][private$selectFields]
biodb.TRACE[2025-03-06 23:45:35.031][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-06 23:45:35.033][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-06 23:45:35.035][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 23:45:35.036][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:35.038][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:35.039][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:35.041][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:35.042][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:35.043][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:35.044][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:35.045][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:35.046][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 23:45:35.048][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-06 23:45:35.049][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:35.050][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:35.051][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:35.052][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:35.053][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-06 23:45:35.055][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:35.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:35.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:35.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:35.059][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:35.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:35.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:35.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:35.064][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:35.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:35.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:35.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:35.069][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-03-06 23:45:35.070][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-03-06 23:45:35.071][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-03-06 23:45:35.116][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-03-06 23:45:35.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-03-06 23:45:35.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:35.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-03-06 23:45:35.126][biodb::testThat]
biodb.INFO [2025-03-06 23:45:35.128][biodb::testThat] Running test function test.wrong.entry (" Wrong entry gives NULL ").
biodb.INFO [2025-03-06 23:45:35.129][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-06 23:45:35.130][biodb::testThat]
biodb.DEBUG[2025-03-06 23:45:35.132][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-03-06 23:45:35.134][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-06 23:45:35.136][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2025-03-06 23:45:35.137][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-03-06 23:45:35.139][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-03-06 23:45:35.140][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-06 23:45:35.141][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-03-06 23:45:35.142][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-03-06 23:45:35.144][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-03-06 23:45:35.147][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:35.148][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:35.149][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:35.162][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:35.163][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:35.164][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:35.166][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:35.167][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGA".
biodb.DEBUG[2025-03-06 23:45:35.170][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-03-06 23:45:35.172][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-03-06 23:45:35.173][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGA".
biodb.TRACE[2025-03-06 23:45:35.472][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGA).
biodb.DEBUG[2025-03-06 23:45:35.786][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-03-06 23:45:35.789][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b5b4e4941cdc7bc8ff5e29f921c1e9db.content"
biodb.TRACE[2025-03-06 23:45:35.794][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b5b4e4941cdc7bc8ff5e29f921c1e9db.request"
biodb.TRACE[2025-03-06 23:45:35.797][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml"
biodb.DEBUG[2025-03-06 23:45:35.799][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-03-06 23:45:35.801][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-06 23:45:35.803][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-06 23:45:35.804][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:35.806][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:35.807][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:35.820][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:35.821][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:35.823][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:35.824][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:35.826][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:35.828][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:35.829][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:35.830][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:35.831][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:35.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:35.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:35.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:35.837][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 23:45:35.838][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 23:45:35.839][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:35.840][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:35.842][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 23:45:35.843][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 23:45:35.844][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:35.845][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:35.847][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 23:45:35.848][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 23:45:35.849][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:35.850][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:35.852][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 23:45:35.853][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 23:45:35.854][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:35.855][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:35.857][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:45:35.858][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:45:35.859][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:35.860][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:35.862][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 23:45:35.863][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:35.864][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:35.865][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:35.867][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:35.868][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:35.869][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:35.871][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:35.872][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-06 23:45:35.873][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 23:45:35.874][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:35.876][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:35.877][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 23:45:35.878][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 23:45:35.880][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:35.881][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:35.882][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 23:45:35.883][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 23:45:35.885][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:35.886][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:35.887][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:35.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:35.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:35.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:35.892][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:35.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:35.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:35.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:35.897][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:35.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:35.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:35.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:35.902][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:35.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:35.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:35.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:35.906][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:35.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:35.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:35.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:35.911][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:35.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:35.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:35.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:35.916][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:35.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:35.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:35.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:35.921][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:35.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:35.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:35.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:35.926][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:35.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:35.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:35.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:35.931][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:35.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:35.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:35.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:35.936][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2025-03-06 23:45:35.937][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-03-06 23:45:35.963][biodb::testThat]
biodb.INFO [2025-03-06 23:45:35.964][biodb::testThat] Running test function test.wrong.entry.among.good.ones (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-03-06 23:45:35.966][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-06 23:45:35.967][biodb::testThat]
biodb.DEBUG[2025-03-06 23:45:35.985][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2025-03-06 23:45:35.986][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2025-03-06 23:45:35.988][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
biodb.TRACE[2025-03-06 23:45:35.989][cch$loadFileContent] Trying to load 3 files from cache: [3]: "WRONGB, 2528, 7799".
biodb.TRACE[2025-03-06 23:45:35.991][cch$loadFileContent] file.exist = [3]: "FALSE, FALSE, FALSE".
biodb.TRACE[2025-03-06 23:45:35.993][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-03-06 23:45:35.995][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-06 23:45:35.996][conn$getEntryContent] 3 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-03-06 23:45:35.997][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-03-06 23:45:36.007][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-03-06 23:45:36.014][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:36.016][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:36.018][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:36.029][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:36.031][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:36.033][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:36.035][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:36.037][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGB".
biodb.DEBUG[2025-03-06 23:45:36.042][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-03-06 23:45:36.044][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-03-06 23:45:36.047][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGB".
biodb.TRACE[2025-03-06 23:45:36.360][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=WRONGB).
biodb.DEBUG[2025-03-06 23:45:36.671][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-03-06 23:45:36.675][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/32348f2b7cfb460a97c8a8aa145f239f.content"
biodb.TRACE[2025-03-06 23:45:36.682][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/32348f2b7cfb460a97c8a8aa145f239f.request"
biodb.DEBUG[2025-03-06 23:45:36.685][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:36.686][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:36.687][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:36.703][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:36.705][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:36.706][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:36.707][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:36.709][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
biodb.DEBUG[2025-03-06 23:45:36.712][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-03-06 23:45:36.714][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-03-06 23:45:36.715][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528".
biodb.TRACE[2025-03-06 23:45:37.031][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2528).
biodb.DEBUG[2025-03-06 23:45:37.338][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-03-06 23:45:37.342][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/65267cab26ad2d71ed08b12751f9bef2.content"
biodb.TRACE[2025-03-06 23:45:37.347][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/65267cab26ad2d71ed08b12751f9bef2.request"
biodb.DEBUG[2025-03-06 23:45:37.349][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:37.350][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:37.352][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:37.371][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:37.372][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:37.373][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:37.374][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:37.376][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
biodb.DEBUG[2025-03-06 23:45:37.379][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-03-06 23:45:37.380][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-03-06 23:45:37.382][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799".
biodb.TRACE[2025-03-06 23:45:37.699][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=7799).
biodb.DEBUG[2025-03-06 23:45:38.009][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-03-06 23:45:38.012][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/07eb1d5438367a7b1616709944d88b07.content"
biodb.TRACE[2025-03-06 23:45:38.017][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/07eb1d5438367a7b1616709944d88b07.request"
biodb.TRACE[2025-03-06 23:45:38.021][private$doSaveContentToFile] Saving to cache [3]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGB.xml, C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml, C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml"
biodb.DEBUG[2025-03-06 23:45:38.025][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-03-06 23:45:38.027][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2025-03-06 23:45:38.028][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2025-03-06 23:45:38.030][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:38.032][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:38.033][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:38.045][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:38.047][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:38.049][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:38.051][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:38.055][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:38.057][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:38.059][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.061][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.064][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:38.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:38.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.072][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 23:45:38.074][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 23:45:38.076][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.078][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.081][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 23:45:38.083][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 23:45:38.085][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.087][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.089][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 23:45:38.091][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 23:45:38.093][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.095][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.098][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 23:45:38.100][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 23:45:38.102][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.103][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.106][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:45:38.108][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:45:38.110][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.112][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.114][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 23:45:38.116][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:38.118][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.120][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.122][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:38.124][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:38.126][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.128][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.130][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-06 23:45:38.133][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 23:45:38.134][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.136][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.139][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 23:45:38.141][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 23:45:38.143][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.145][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.147][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 23:45:38.149][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 23:45:38.151][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.153][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.156][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:38.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:38.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.164][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:38.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:38.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.172][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:38.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:38.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.181][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:38.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:38.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.189][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:38.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:38.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.197][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:38.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:38.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.204][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:38.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:38.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:38.209][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:38.210][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:38.211][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:38.222][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:38.223][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:38.225][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:38.226][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[2025-03-06 23:45:38.229][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:38.230][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:38.232][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.233][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.236][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:38.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:38.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.244][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 23:45:38.246][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 23:45:38.247][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.249][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.251][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 23:45:38.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 23:45:38.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.259][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 23:45:38.261][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 23:45:38.263][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.265][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.267][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 23:45:38.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 23:45:38.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.275][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 23:45:38.277][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 23:45:38.279][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.281][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.283][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 23:45:38.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 23:45:38.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.291][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 23:45:38.293][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 23:45:38.294][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.296][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.298][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 23:45:38.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 23:45:38.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.306][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:45:38.308][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:45:38.310][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.312][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.315][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:45:38.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:45:38.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.323][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 23:45:38.325][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:38.326][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.327][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.329][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 23:45:38.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:38.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.334][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:38.336][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:38.337][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.338][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.340][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:38.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:38.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.345][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-06 23:45:38.346][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 23:45:38.347][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.348][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.350][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 23:45:38.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 23:45:38.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.355][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 23:45:38.357][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 23:45:38.358][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.359][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.360][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 23:45:38.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 23:45:38.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.366][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 23:45:38.367][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 23:45:38.368][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.369][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.371][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 23:45:38.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 23:45:38.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.376][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:38.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:38.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.381][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:38.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:38.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.386][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:38.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:38.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.394][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:38.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:38.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.399][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:38.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:38.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.404][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:38.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:38.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.410][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:38.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:38.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:38.415][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:38.416][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:38.417][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:38.434][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:38.435][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:38.436][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:38.438][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:38.440][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:38.442][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:38.443][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.444][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.446][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:38.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:38.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.451][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 23:45:38.452][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 23:45:38.453][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.455][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.456][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 23:45:38.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 23:45:38.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.461][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 23:45:38.463][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 23:45:38.464][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.465][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.467][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 23:45:38.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 23:45:38.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.472][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 23:45:38.473][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 23:45:38.475][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.476][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.477][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 23:45:38.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 23:45:38.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.494][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 23:45:38.496][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 23:45:38.497][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.498][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.500][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 23:45:38.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 23:45:38.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.505][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:45:38.506][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:45:38.507][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.509][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.510][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:45:38.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:45:38.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.516][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 23:45:38.517][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:38.518][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.519][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.521][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 23:45:38.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:38.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.526][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:38.527][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:38.529][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.530][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.531][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:38.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:38.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.537][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-06 23:45:38.538][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 23:45:38.539][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.540][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.542][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 23:45:38.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 23:45:38.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.547][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 23:45:38.549][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 23:45:38.550][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.551][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.552][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 23:45:38.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 23:45:38.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.558][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 23:45:38.559][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 23:45:38.560][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.561][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.563][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 23:45:38.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 23:45:38.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.568][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:38.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:38.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.574][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:38.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:38.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.579][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:38.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:38.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.584][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:38.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:38.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.589][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:38.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:38.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.594][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:38.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:38.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.599][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:38.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:38.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.604][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:38.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:38.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.609][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:38.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:38.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.614][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:38.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:38.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.619][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:38.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:38.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.624][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:38.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:38.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.629][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:38.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:38.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.634][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:38.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:38.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.640][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:38.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:38.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:38.645][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:38.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:38.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:38.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:38.650][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2025-03-06 23:45:38.651][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-03-06 23:45:38.652][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2025-03-06 23:45:38.679][biodb::testThat]
biodb.INFO [2025-03-06 23:45:38.680][biodb::testThat] Running test function test.peak.table (" The peak table is correct. ").
biodb.INFO [2025-03-06 23:45:38.681][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-06 23:45:38.683][biodb::testThat]
biodb.INFO [2025-03-06 23:45:38.740][biodb::testThat]
biodb.INFO [2025-03-06 23:45:38.742][biodb::testThat] Running test function test.nb.entries (" Nb entries is positive. ").
biodb.INFO [2025-03-06 23:45:38.743][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-06 23:45:38.744][biodb::testThat]
biodb.INFO [2025-03-06 23:45:38.770][biodb::testThat]
biodb.INFO [2025-03-06 23:45:38.772][biodb::testThat] Running test function test.entry.ids (" We can get a list of entry ids. ").
biodb.INFO [2025-03-06 23:45:38.773][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-06 23:45:38.774][biodb::testThat]
biodb.DEBUG[2025-03-06 23:45:38.777][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[2025-03-06 23:45:38.781][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-03-06 23:45:38.782][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-03-06 23:45:38.784][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1%2A&searchCategory=CHEBI%20ID&maximumResults=100&starsCategory=ALL".
biodb.TRACE[2025-03-06 23:45:39.195][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1%2A&searchCategory=CHEBI%20ID&maximumResults=100&starsCategory=ALL).
biodb.DEBUG[2025-03-06 23:45:39.647][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-03-06 23:45:39.656][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/aed2cd6d5d221333c0a30a9f8dbc41b4.content"
biodb.TRACE[2025-03-06 23:45:39.665][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/aed2cd6d5d221333c0a30a9f8dbc41b4.request"
biodb.TRACE[2025-03-06 23:45:39.699][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-06 23:45:39.700][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 23:45:39.702][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:39.703][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:39.705][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:39.707][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:39.708][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:39.710][ef$get] fields variable is a list.
biodb.INFO [2025-03-06 23:45:39.712][biodb::testThat]
biodb.INFO [2025-03-06 23:45:39.713][biodb::testThat] Running test function test.annotateMzValues (" annotateMzValues() works correctly. ").
biodb.INFO [2025-03-06 23:45:39.714][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-06 23:45:39.716][biodb::testThat]
biodb.ERROR[2025-03-06 23:45:39.736][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2025-03-06 23:45:39.754][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2025-03-06 23:45:39.779][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-03-06 23:45:39.782][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-03-06 23:45:39.784][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-03-06 23:45:39.786][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-03-06 23:45:39.788][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:39.789][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:39.791][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:39.793][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:39.794][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:39.796][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-03-06 23:45:39.813][biodb::testContext]
biodb.INFO [2025-03-06 23:45:39.814][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-06 23:45:39.816][biodb::testContext] Test context - Test conversions
biodb.INFO [2025-03-06 23:45:39.817][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-06 23:45:39.818][biodb::testContext]
biodb.INFO [2025-03-06 23:45:39.821][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2025-03-06 23:45:39.823][self$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.20-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2025-03-06 23:45:39.828][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-06 23:45:39.830][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-03-06 23:45:39.831][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-03-06 23:45:39.832][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:39.833][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:39.834][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.DEBUG[2025-03-06 23:45:39.835][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-03-06 23:45:39.837][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-03-06 23:45:39.838][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:39.839][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:39.840][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:39.841][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-03-06 23:45:39.842][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-03-06 23:45:39.843][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:39.845][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:39.847][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:39.849][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-03-06 23:45:39.851][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-03-06 23:45:39.852][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-03-06 23:45:39.854][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:39.856][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:39.857][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:39.859][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-03-06 23:45:39.861][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-03-06 23:45:39.863][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-03-06 23:45:39.865][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:39.867][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:39.868][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:39.870][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-03-06 23:45:39.872][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-03-06 23:45:39.874][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:39.876][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:39.877][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:39.879][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-03-06 23:45:39.881][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-03-06 23:45:39.883][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-03-06 23:45:39.885][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:39.887][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:39.888][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:39.890][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-03-06 23:45:39.892][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-03-06 23:45:39.894][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:39.896][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:39.897][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:39.899][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-03-06 23:45:39.901][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-03-06 23:45:39.903][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-03-06 23:45:39.905][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:39.906][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:39.908][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:39.910][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-03-06 23:45:39.912][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-03-06 23:45:39.914][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-03-06 23:45:39.916][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-03-06 23:45:39.927][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-03-06 23:45:39.931][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-03-06 23:45:39.933][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:39.934][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:39.935][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:39.936][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-03-06 23:45:39.938][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-03-06 23:45:39.939][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:39.941][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:39.942][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:39.943][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-03-06 23:45:39.944][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-03-06 23:45:39.945][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:39.947][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:39.948][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:39.949][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-03-06 23:45:39.950][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-03-06 23:45:39.952][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:39.953][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:39.954][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:39.955][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-03-06 23:45:39.956][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-03-06 23:45:39.957][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:39.958][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:39.959][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:39.960][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-03-06 23:45:39.962][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-03-06 23:45:39.963][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:39.964][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:39.965][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:39.966][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-03-06 23:45:39.967][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-03-06 23:45:39.971][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-03-06 23:45:39.973][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:39.974][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:39.975][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:39.977][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-03-06 23:45:39.979][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-03-06 23:45:39.981][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-03-06 23:45:39.983][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:39.984][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:39.986][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:39.987][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-03-06 23:45:39.989][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-06 23:45:39.990][self$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[2025-03-06 23:45:39.991][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-06 23:45:39.993][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-06 23:45:39.994][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-06 23:45:39.995][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-06 23:45:39.996][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-06 23:45:39.998][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-06 23:45:40.000][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-06 23:45:40.001][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-06 23:45:40.002][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-06 23:45:40.003][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-03-06 23:45:40.005][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-06 23:45:40.006][self$setPropertyValue]
biodb.DEBUG[2025-03-06 23:45:40.007][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-06 23:45:40.008][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-06 23:45:40.008][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-06 23:45:40.008][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-06 23:45:40.008][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-06 23:45:40.008][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-06 23:45:40.010][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-06 23:45:40.011][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 23:45:40.012][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 23:45:40.013][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-06 23:45:40.014][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 23:45:40.015][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 23:45:40.017][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-06 23:45:40.019][self$setPropertyValue]
biodb.DEBUG[2025-03-06 23:45:40.021][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-06 23:45:40.022][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-06 23:45:40.024][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-06 23:45:40.026][self$setPropertyValue]
biodb.DEBUG[2025-03-06 23:45:40.028][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-03-06 23:45:40.032][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-06 23:45:40.034][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-03-06 23:45:40.035][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-06 23:45:40.037][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-06 23:45:40.039][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-06 23:45:40.041][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-06 23:45:40.043][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-06 23:45:40.045][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-06 23:45:40.047][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-06 23:45:40.049][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-06 23:45:40.051][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-06 23:45:40.053][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-03-06 23:45:40.054][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-06 23:45:40.056][self$setPropertyValue]
biodb.DEBUG[2025-03-06 23:45:40.058][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-06 23:45:40.060][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-06 23:45:40.060][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-06 23:45:40.060][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-06 23:45:40.060][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-06 23:45:40.060][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-06 23:45:40.062][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-06 23:45:40.064][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 23:45:40.066][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 23:45:40.067][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-06 23:45:40.069][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 23:45:40.071][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 23:45:40.073][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-06 23:45:40.075][self$setPropertyValue]
biodb.DEBUG[2025-03-06 23:45:40.076][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-06 23:45:40.078][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-06 23:45:40.080][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-06 23:45:40.082][self$setPropertyValue]
biodb.DEBUG[2025-03-06 23:45:40.084][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-03-06 23:45:40.087][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-06 23:45:40.089][self$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[2025-03-06 23:45:40.091][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-06 23:45:40.093][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-06 23:45:40.095][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-06 23:45:40.097][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-06 23:45:40.098][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-06 23:45:40.100][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-06 23:45:40.102][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-06 23:45:40.104][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-06 23:45:40.106][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-06 23:45:40.108][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-03-06 23:45:40.110][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-06 23:45:40.112][self$setPropertyValue]
biodb.DEBUG[2025-03-06 23:45:40.114][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-06 23:45:40.116][self$setPropertyValue]
biodb.DEBUG[2025-03-06 23:45:40.117][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-06 23:45:40.119][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 23:45:40.121][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 23:45:40.123][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-06 23:45:40.125][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 23:45:40.126][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 23:45:40.128][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-06 23:45:40.130][self$setPropertyValue]
biodb.DEBUG[2025-03-06 23:45:40.132][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-06 23:45:40.134][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-06 23:45:40.135][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-06 23:45:40.137][self$setPropertyValue]
biodb.DEBUG[2025-03-06 23:45:40.140][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-03-06 23:45:40.143][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-06 23:45:40.144][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-03-06 23:45:40.146][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-06 23:45:40.147][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-06 23:45:40.148][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-06 23:45:40.150][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-06 23:45:40.151][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-06 23:45:40.152][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-06 23:45:40.153][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-06 23:45:40.154][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-06 23:45:40.156][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-06 23:45:40.157][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-03-06 23:45:40.158][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-06 23:45:40.159][self$setPropertyValue]
biodb.DEBUG[2025-03-06 23:45:40.160][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-06 23:45:40.161][self$setPropertyValue]
biodb.DEBUG[2025-03-06 23:45:40.163][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-06 23:45:40.164][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 23:45:40.165][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 23:45:40.166][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-06 23:45:40.167][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 23:45:40.168][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 23:45:40.169][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-06 23:45:40.171][self$setPropertyValue]
biodb.DEBUG[2025-03-06 23:45:40.172][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-06 23:45:40.173][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-06 23:45:40.174][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-06 23:45:40.175][self$setPropertyValue]
biodb.DEBUG[2025-03-06 23:45:40.177][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-06 23:45:40.178][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:40.179][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:40.180][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:40.181][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:40.182][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:40.183][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:40.184][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:40.186][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:40.187][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:40.188][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:40.189][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:40.190][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:40.191][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:40.193][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:40.194][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:40.196][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:40.197][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:40.199][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:40.201][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:40.202][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:40.203][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:40.205][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:40.206][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:40.207][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:40.208][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:40.209][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:40.210][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[2025-03-06 23:45:40.211][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:40.212][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:40.213][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:40.215][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:40.216][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:40.217][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:40.218][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:40.219][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:40.220][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:40.221][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:40.222][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:40.224][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:40.225][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:40.226][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:40.227][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:40.228][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:40.229][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:40.230][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:40.231][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:40.233][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[2025-03-06 23:45:40.234][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:40.235][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:40.236][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:40.237][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:40.238][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:40.239][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:40.240][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:40.241][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:40.243][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:40.244][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:40.245][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:40.246][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:40.247][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:40.248][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:40.249][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:40.250][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:40.251][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:40.252][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:40.254][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:40.255][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:40.256][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:40.257][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:40.258][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:40.259][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:40.260][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:40.261][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:40.262][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:40.263][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:40.264][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:40.266][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.DEBUG[2025-03-06 23:45:40.267][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:40.268][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:40.269][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:40.271][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:40.272][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:40.273][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:40.274][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:40.275][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:40.276][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:40.277][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:40.278][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-03-06 23:45:40.280][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-03-06 23:45:40.282][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-03-06 23:45:40.284][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-03-06 23:45:40.287][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-03-06 23:45:40.289][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-03-06 23:45:40.292][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-03-06 23:45:40.294][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-03-06 23:45:40.296][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-03-06 23:45:40.299][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-03-06 23:45:40.301][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-06 23:45:40.304][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-03-06 23:45:40.306][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-03-06 23:45:40.309][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-03-06 23:45:40.311][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-03-06 23:45:40.314][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-03-06 23:45:40.315][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-03-06 23:45:40.317][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-03-06 23:45:40.319][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-03-06 23:45:40.320][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-03-06 23:45:40.322][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-03-06 23:45:40.324][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-03-06 23:45:40.325][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-03-06 23:45:40.327][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-03-06 23:45:40.328][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-03-06 23:45:40.330][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-03-06 23:45:40.332][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-03-06 23:45:40.333][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-03-06 23:45:40.335][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-03-06 23:45:40.336][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-03-06 23:45:40.338][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-03-06 23:45:40.339][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-03-06 23:45:40.341][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-03-06 23:45:40.343][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-03-06 23:45:40.344][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-03-06 23:45:40.346][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-03-06 23:45:40.347][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-03-06 23:45:40.349][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-03-06 23:45:40.350][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-03-06 23:45:40.352][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-03-06 23:45:40.354][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-03-06 23:45:40.355][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-03-06 23:45:40.357][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-03-06 23:45:40.358][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-03-06 23:45:40.360][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-03-06 23:45:40.362][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-03-06 23:45:40.363][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-03-06 23:45:40.365][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-03-06 23:45:40.366][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-03-06 23:45:40.368][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-03-06 23:45:40.369][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-03-06 23:45:40.371][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-03-06 23:45:40.373][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-03-06 23:45:40.374][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-03-06 23:45:40.376][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-03-06 23:45:40.377][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-03-06 23:45:40.379][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-03-06 23:45:40.381][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-03-06 23:45:40.382][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-03-06 23:45:40.384][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-03-06 23:45:40.385][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-03-06 23:45:40.387][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-03-06 23:45:40.389][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-03-06 23:45:40.390][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-03-06 23:45:40.392][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-03-06 23:45:40.393][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-03-06 23:45:40.395][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-03-06 23:45:40.397][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-03-06 23:45:40.398][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-03-06 23:45:40.424][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-03-06 23:45:40.426][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-03-06 23:45:40.428][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-03-06 23:45:40.430][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-03-06 23:45:40.431][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-03-06 23:45:40.433][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-03-06 23:45:40.434][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-03-06 23:45:40.436][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-03-06 23:45:40.438][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-03-06 23:45:40.440][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-03-06 23:45:40.442][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-03-06 23:45:40.445][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-03-06 23:45:40.447][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-03-06 23:45:40.450][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-03-06 23:45:40.452][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-03-06 23:45:40.456][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2025-03-06 23:45:40.458][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-06 23:45:40.460][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:40.461][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:40.463][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:40.465][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:40.467][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:40.468][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:40.470][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:40.472][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:40.473][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:40.475][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:40.477][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:40.478][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:40.480][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:40.482][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:40.483][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:40.485][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:40.487][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:40.488][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:40.490][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:40.492][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:40.493][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:40.495][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:40.497][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:40.499][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:40.500][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:40.502][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:40.504][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:40.505][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:40.507][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:40.509][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:40.511][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:40.512][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:40.514][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:40.516][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:40.517][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:40.519][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:40.521][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:40.522][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:40.524][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[2025-03-06 23:45:40.526][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:40.527][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:40.529][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:40.531][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:40.532][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:40.534][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:40.536][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[2025-03-06 23:45:40.537][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:40.539][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:40.541][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:40.542][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:40.544][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:40.546][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:40.547][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:40.549][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:40.551][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:40.553][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:40.554][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:40.556][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:40.558][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:40.559][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:40.561][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:40.563][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:40.564][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:40.566][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:40.568][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:40.569][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:40.571][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[2025-03-06 23:45:40.573][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:40.574][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:40.576][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:40.578][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:40.579][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:40.581][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:40.583][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[2025-03-06 23:45:40.585][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:40.587][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:40.588][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:40.590][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:40.592][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:40.594][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:40.596][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:40.597][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:40.599][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:40.601][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:40.603][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:40.604][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:40.606][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:40.608][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:40.609][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:40.611][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:40.612][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:40.614][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:40.615][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:40.617][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:40.619][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:40.620][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:40.622][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:40.623][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:40.625][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:40.627][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:40.628][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:40.630][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:40.632][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:40.633][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:40.635][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:40.636][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:40.638][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:40.640][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:40.641][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[2025-03-06 23:45:40.643][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:40.645][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:40.646][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:40.648][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:40.650][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:40.651][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:40.653][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[2025-03-06 23:45:40.655][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:40.657][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:40.658][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:40.660][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:40.662][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:40.663][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:40.665][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:40.669][biodb$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.20-bioc/R/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-03-06 23:45:40.672][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-03-06 23:45:40.676][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-06 23:45:40.677][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-03-06 23:45:40.679][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-06 23:45:40.681][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-06 23:45:40.683][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-06 23:45:40.685][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-06 23:45:40.687][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-03-06 23:45:40.689][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-03-06 23:45:40.691][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-03-06 23:45:40.692][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-06 23:45:40.694][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-06 23:45:40.696][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-03-06 23:45:40.698][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-06 23:45:40.700][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-03-06 23:45:40.700][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-03-06 23:45:40.700][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-03-06 23:45:40.700][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-03-06 23:45:40.700][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-03-06 23:45:40.700][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-03-06 23:45:40.700][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-03-06 23:45:40.700][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-03-06 23:45:40.700][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-03-06 23:45:40.700][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-03-06 23:45:40.700][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-03-06 23:45:40.702][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-03-06 23:45:40.703][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-06 23:45:40.703][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-06 23:45:40.703][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-06 23:45:40.705][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-03-06 23:45:40.706][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 23:45:40.707][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 23:45:40.708][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-06 23:45:40.709][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 23:45:40.710][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 23:45:40.711][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-06 23:45:40.713][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-03-06 23:45:40.713][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-03-06 23:45:40.714][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-06 23:45:40.715][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-06 23:45:40.716][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-03-06 23:45:40.717][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-03-06 23:45:40.717][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-03-06 23:45:40.719][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-03-06 23:45:40.721][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-06 23:45:40.724][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-03-06 23:45:40.726][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-03-06 23:45:40.729][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-03-06 23:45:40.732][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-03-06 23:45:40.738][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-03-06 23:45:40.740][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-03-06 23:45:40.742][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-03-06 23:45:40.745][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-03-06 23:45:40.748][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-06 23:45:40.750][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-06 23:45:40.752][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-03-06 23:45:40.754][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-03-06 23:45:40.758][biodb::testThat]
biodb.INFO [2025-03-06 23:45:40.759][biodb::testThat] Running test function test_chebi_convCasToChebi (" convCasToChebi() works. ").
biodb.INFO [2025-03-06 23:45:40.761][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-06 23:45:40.763][biodb::testThat]
biodb.DEBUG[2025-03-06 23:45:40.770][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-03-06 23:45:40.778][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-03-06 23:45:40.780][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-03-06 23:45:40.782][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.TRACE[2025-03-06 23:45:41.105][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl).
biodb.DEBUG[2025-03-06 23:45:41.494][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-03-06 23:45:41.496][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content"
biodb.TRACE[2025-03-06 23:45:41.501][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.request"
biodb.DEBUG[2025-03-06 23:45:41.506][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[2025-03-06 23:45:41.510][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-03-06 23:45:41.511][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-03-06 23:45:41.513][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2025-03-06 23:45:41.844][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2025-03-06 23:45:42.154][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-03-06 23:45:42.157][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content"
biodb.TRACE[2025-03-06 23:45:42.162][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.request"
biodb.DEBUG[2025-03-06 23:45:42.165][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:42.167][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:42.168][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:42.179][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:42.181][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:42.182][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:42.183][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:42.185][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-03-06 23:45:42.189][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-03-06 23:45:42.191][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-03-06 23:45:42.193][private$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[2025-03-06 23:45:42.497][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[2025-03-06 23:45:42.808][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-03-06 23:45:42.810][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content"
biodb.TRACE[2025-03-06 23:45:42.815][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.request"
biodb.DEBUG[2025-03-06 23:45:42.819][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:42.820][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:42.821][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:42.836][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:42.838][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:42.840][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:42.841][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:42.861][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:42.862][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:42.863][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:42.876][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:42.877][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:42.878][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:42.879][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:42.885][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[2025-03-06 23:45:42.889][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-06 23:45:42.891][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2025-03-06 23:45:42.892][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 23:45:42.894][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2025-03-06 23:45:42.897][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:42.898][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:42.899][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:42.914][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:42.916][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:42.917][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:42.918][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:42.920][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[2025-03-06 23:45:42.924][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-06 23:45:42.925][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2025-03-06 23:45:42.927][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 23:45:42.929][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2025-03-06 23:45:42.932][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:42.933][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:42.934][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:42.953][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:42.954][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:42.955][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:42.956][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:42.957][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:42.959][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:42.960][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:42.977][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:42.978][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:42.991][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:42.993][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:42.998][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[2025-03-06 23:45:43.002][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-06 23:45:43.004][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2025-03-06 23:45:43.006][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 23:45:43.008][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2025-03-06 23:45:43.010][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:43.011][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:43.012][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:43.022][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:43.023][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:43.024][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:43.025][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:43.027][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[2025-03-06 23:45:43.031][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-06 23:45:43.033][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2025-03-06 23:45:43.034][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 23:45:43.036][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2025-03-06 23:45:43.038][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:43.040][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:43.041][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:43.062][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:43.063][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:43.065][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:43.066][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[2025-03-06 23:45:43.068][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[2025-03-06 23:45:43.072][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-03-06 23:45:43.073][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-03-06 23:45:43.075][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=14215-68-0&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2025-03-06 23:45:43.391][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=14215-68-0&searchCategory=REGISTRY%20NUMBERS&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2025-03-06 23:45:43.700][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-03-06 23:45:43.703][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70e3912746e7e39b39fbbffe6c90b502.content"
biodb.TRACE[2025-03-06 23:45:43.708][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70e3912746e7e39b39fbbffe6c90b502.request"
biodb.DEBUG[2025-03-06 23:45:43.712][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:43.713][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:43.714][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:43.728][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:43.729][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:43.730][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:43.732][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-03-06 23:45:43.748][biodb::testThat]
biodb.INFO [2025-03-06 23:45:43.750][biodb::testThat] Running test function test_chebi_convInchiToChebi (" convInchiToChebi() works. ").
biodb.INFO [2025-03-06 23:45:43.751][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-06 23:45:43.752][biodb::testThat]
biodb.DEBUG[2025-03-06 23:45:43.756][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=InChI=1S/C15H24/c1-9(2)11-7-8-15(4)12-6-5-10(3)14(15)13(11)12/h5,9,11-14H,6-8H2,1-4H3/t11?,12?,13?,14?,15-/m0/s1&searchCategory=INCHI/INCHI KEY&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-03-06 23:45:43.761][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-03-06 23:45:43.763][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-03-06 23:45:43.768][private$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[2025-03-06 23:45:44.100][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[2025-03-06 23:45:44.402][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-03-06 23:45:44.407][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/64007787a4f3864bb479683766386808.content"
biodb.TRACE[2025-03-06 23:45:44.415][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/64007787a4f3864bb479683766386808.request"
biodb.DEBUG[2025-03-06 23:45:44.419][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:44.421][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:44.423][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:44.513][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:44.515][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:44.516][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:44.517][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:44.522][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[2025-03-06 23:45:44.526][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-03-06 23:45:44.528][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-03-06 23:45:44.531][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=VLXDPFLIRFYIME-MWHZVNNOSA-N&searchCategory=INCHI%2FINCHI%20KEY&maximumResults=10&starsCategory=ALL".
biodb.TRACE[2025-03-06 23:45:44.836][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=VLXDPFLIRFYIME-MWHZVNNOSA-N&searchCategory=INCHI%2FINCHI%20KEY&maximumResults=10&starsCategory=ALL).
biodb.DEBUG[2025-03-06 23:45:45.143][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-03-06 23:45:45.146][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7547b08b3ebd50447d61026ab0af8d63.content"
biodb.TRACE[2025-03-06 23:45:45.150][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7547b08b3ebd50447d61026ab0af8d63.request"
biodb.DEBUG[2025-03-06 23:45:45.154][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:45.155][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:45.156][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:45.506][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:45.507][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:45.509][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:45.510][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-03-06 23:45:45.520][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-03-06 23:45:45.522][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-03-06 23:45:45.524][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-03-06 23:45:45.525][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-03-06 23:45:45.526][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:45.527][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:45.528][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:45.530][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:45.532][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:45.533][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-03-06 23:45:45.541][biodb::testContext]
biodb.INFO [2025-03-06 23:45:45.543][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-06 23:45:45.545][biodb::testContext] Test context - Test web services
biodb.INFO [2025-03-06 23:45:45.547][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-06 23:45:45.549][biodb::testContext]
biodb.INFO [2025-03-06 23:45:45.553][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2025-03-06 23:45:45.557][self$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.20-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2025-03-06 23:45:45.565][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-06 23:45:45.567][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-03-06 23:45:45.569][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-03-06 23:45:45.571][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:45.573][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:45.575][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:45.577][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-03-06 23:45:45.579][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-03-06 23:45:45.581][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:45.582][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:45.584][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:45.586][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-03-06 23:45:45.588][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-03-06 23:45:45.590][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:45.592][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:45.593][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[2025-03-06 23:45:45.595][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-03-06 23:45:45.597][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-03-06 23:45:45.599][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-03-06 23:45:45.601][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:45.603][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:45.605][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:45.607][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-03-06 23:45:45.609][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-03-06 23:45:45.611][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-03-06 23:45:45.613][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:45.614][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:45.616][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:45.618][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-03-06 23:45:45.620][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-03-06 23:45:45.622][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:45.624][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:45.626][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:45.627][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-03-06 23:45:45.629][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-03-06 23:45:45.631][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-03-06 23:45:45.633][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:45.635][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:45.637][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[2025-03-06 23:45:45.639][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-03-06 23:45:45.641][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-03-06 23:45:45.643][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:45.644][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:45.646][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:45.648][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-03-06 23:45:45.650][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-03-06 23:45:45.652][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-03-06 23:45:45.654][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:45.655][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:45.657][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.DEBUG[2025-03-06 23:45:45.659][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-03-06 23:45:45.661][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-03-06 23:45:45.662][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-03-06 23:45:45.664][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-03-06 23:45:45.666][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-03-06 23:45:45.668][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-03-06 23:45:45.670][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:45.671][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:45.673][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:45.675][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-03-06 23:45:45.677][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-03-06 23:45:45.678][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:45.680][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:45.681][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:45.683][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-03-06 23:45:45.685][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-03-06 23:45:45.687][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:45.688][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:45.690][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:45.692][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-03-06 23:45:45.694][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-03-06 23:45:45.695][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:45.697][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:45.698][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:45.700][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-03-06 23:45:45.702][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-03-06 23:45:45.704][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:45.705][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:45.707][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:45.709][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-03-06 23:45:45.711][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-03-06 23:45:45.712][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:45.714][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:45.716][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:45.717][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-03-06 23:45:45.719][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-03-06 23:45:45.724][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-03-06 23:45:45.726][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:45.728][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:45.730][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:45.731][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-03-06 23:45:45.733][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-03-06 23:45:45.735][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-03-06 23:45:45.737][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:45.739][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:45.740][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[2025-03-06 23:45:45.743][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-03-06 23:45:45.746][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-06 23:45:45.747][self$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[2025-03-06 23:45:45.749][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-06 23:45:45.751][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-06 23:45:45.753][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-06 23:45:45.754][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-06 23:45:45.755][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-06 23:45:45.757][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-06 23:45:45.758][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-06 23:45:45.759][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-06 23:45:45.761][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-06 23:45:45.762][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-03-06 23:45:45.763][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-06 23:45:45.765][self$setPropertyValue]
biodb.DEBUG[2025-03-06 23:45:45.767][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-06 23:45:45.769][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-06 23:45:45.769][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-06 23:45:45.769][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-06 23:45:45.769][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-06 23:45:45.769][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-06 23:45:45.771][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-06 23:45:45.773][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 23:45:45.775][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 23:45:45.776][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-06 23:45:45.778][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 23:45:45.780][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 23:45:45.782][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-06 23:45:45.784][self$setPropertyValue]
biodb.DEBUG[2025-03-06 23:45:45.786][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-06 23:45:45.788][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-06 23:45:45.789][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-06 23:45:45.791][self$setPropertyValue]
biodb.DEBUG[2025-03-06 23:45:45.792][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-03-06 23:45:45.794][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-06 23:45:45.795][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-03-06 23:45:45.797][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-06 23:45:45.798][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-06 23:45:45.799][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-06 23:45:45.800][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-06 23:45:45.802][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-06 23:45:45.804][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-06 23:45:45.805][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-06 23:45:45.806][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-06 23:45:45.807][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-06 23:45:45.809][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-03-06 23:45:45.810][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-06 23:45:45.811][self$setPropertyValue]
biodb.DEBUG[2025-03-06 23:45:45.812][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-06 23:45:45.814][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-06 23:45:45.814][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-06 23:45:45.814][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-06 23:45:45.814][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-06 23:45:45.814][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-06 23:45:45.815][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-06 23:45:45.816][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 23:45:45.817][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 23:45:45.818][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-06 23:45:45.820][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 23:45:45.821][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 23:45:45.822][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-06 23:45:45.823][self$setPropertyValue]
biodb.DEBUG[2025-03-06 23:45:45.824][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-06 23:45:45.826][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-06 23:45:45.827][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-06 23:45:45.829][self$setPropertyValue]
biodb.DEBUG[2025-03-06 23:45:45.831][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-03-06 23:45:45.834][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-06 23:45:45.836][self$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[2025-03-06 23:45:45.838][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-06 23:45:45.840][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-06 23:45:45.841][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-06 23:45:45.843][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-06 23:45:45.845][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-06 23:45:45.847][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-06 23:45:45.850][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-06 23:45:45.852][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-06 23:45:45.853][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-06 23:45:45.854][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-03-06 23:45:45.856][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-06 23:45:45.857][self$setPropertyValue]
biodb.DEBUG[2025-03-06 23:45:45.858][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-06 23:45:45.859][self$setPropertyValue]
biodb.DEBUG[2025-03-06 23:45:45.861][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-06 23:45:45.862][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 23:45:45.863][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 23:45:45.864][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-06 23:45:45.865][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 23:45:45.866][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 23:45:45.867][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-06 23:45:45.869][self$setPropertyValue]
biodb.DEBUG[2025-03-06 23:45:45.870][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-06 23:45:45.871][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-06 23:45:45.872][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-06 23:45:45.873][self$setPropertyValue]
biodb.DEBUG[2025-03-06 23:45:45.887][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-03-06 23:45:45.890][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-06 23:45:45.891][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-03-06 23:45:45.892][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-06 23:45:45.894][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-06 23:45:45.895][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-06 23:45:45.896][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-06 23:45:45.897][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-06 23:45:45.898][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-06 23:45:45.900][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-06 23:45:45.901][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-06 23:45:45.902][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-06 23:45:45.904][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-03-06 23:45:45.906][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-06 23:45:45.907][self$setPropertyValue]
biodb.DEBUG[2025-03-06 23:45:45.909][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-06 23:45:45.911][self$setPropertyValue]
biodb.DEBUG[2025-03-06 23:45:45.913][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-06 23:45:45.915][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 23:45:45.916][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 23:45:45.918][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-06 23:45:45.920][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 23:45:45.922][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 23:45:45.923][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-06 23:45:45.925][self$setPropertyValue]
biodb.DEBUG[2025-03-06 23:45:45.927][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-06 23:45:45.928][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-06 23:45:45.930][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-06 23:45:45.932][self$setPropertyValue]
biodb.DEBUG[2025-03-06 23:45:45.934][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-06 23:45:45.936][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:45.938][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:45.939][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:45.941][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:45.943][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:45.944][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:45.946][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:45.948][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:45.950][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:45.952][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:45.953][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:45.955][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:45.957][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:45.958][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:45.960][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:45.962][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:45.963][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:45.965][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:45.967][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:45.969][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:45.971][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:45.973][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.DEBUG[2025-03-06 23:45:45.975][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:45.977][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:45.979][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:45.981][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:45.983][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:45.985][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:45.987][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:45.989][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:45.991][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:45.993][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:45.995][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:45.997][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:45.999][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:46.001][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:46.002][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:46.004][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:46.006][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:46.007][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:46.008][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:46.009][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[2025-03-06 23:45:46.010][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:46.011][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:46.012][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:46.014][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:46.015][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[2025-03-06 23:45:46.017][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:46.018][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:46.020][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:46.022][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:46.024][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[2025-03-06 23:45:46.025][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:46.027][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:46.028][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:46.030][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:46.032][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[2025-03-06 23:45:46.033][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:46.035][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:46.036][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:46.038][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:46.040][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[2025-03-06 23:45:46.041][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:46.043][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:46.045][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:46.046][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:46.048][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[2025-03-06 23:45:46.049][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:46.051][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:46.053][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:46.054][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:46.056][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[2025-03-06 23:45:46.057][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:46.059][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:46.061][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:46.062][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:46.064][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.DEBUG[2025-03-06 23:45:46.066][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:46.067][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:46.069][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:46.071][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:46.072][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.DEBUG[2025-03-06 23:45:46.074][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:46.076][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:46.077][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:46.079][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:46.080][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[2025-03-06 23:45:46.082][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-03-06 23:45:46.085][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-03-06 23:45:46.087][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-03-06 23:45:46.090][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-03-06 23:45:46.092][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-03-06 23:45:46.094][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-03-06 23:45:46.096][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-03-06 23:45:46.098][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-03-06 23:45:46.099][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-03-06 23:45:46.101][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-03-06 23:45:46.102][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-06 23:45:46.104][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-03-06 23:45:46.105][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-03-06 23:45:46.107][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-03-06 23:45:46.109][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-03-06 23:45:46.110][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-03-06 23:45:46.112][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-03-06 23:45:46.113][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-03-06 23:45:46.115][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-03-06 23:45:46.117][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-03-06 23:45:46.118][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-03-06 23:45:46.120][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-03-06 23:45:46.121][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-03-06 23:45:46.123][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-03-06 23:45:46.125][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-03-06 23:45:46.126][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-03-06 23:45:46.128][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-03-06 23:45:46.129][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-03-06 23:45:46.131][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-03-06 23:45:46.133][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-03-06 23:45:46.134][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-03-06 23:45:46.136][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-03-06 23:45:46.137][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-03-06 23:45:46.139][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-03-06 23:45:46.141][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-03-06 23:45:46.144][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-03-06 23:45:46.145][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-03-06 23:45:46.148][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-03-06 23:45:46.151][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-03-06 23:45:46.153][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-03-06 23:45:46.156][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-03-06 23:45:46.158][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-03-06 23:45:46.161][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-03-06 23:45:46.164][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-03-06 23:45:46.166][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-03-06 23:45:46.169][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-03-06 23:45:46.172][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-03-06 23:45:46.175][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-03-06 23:45:46.177][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-03-06 23:45:46.178][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-03-06 23:45:46.180][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-03-06 23:45:46.182][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-03-06 23:45:46.183][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-03-06 23:45:46.185][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-03-06 23:45:46.186][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-03-06 23:45:46.188][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-03-06 23:45:46.189][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-03-06 23:45:46.191][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-03-06 23:45:46.193][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-03-06 23:45:46.194][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-03-06 23:45:46.196][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-03-06 23:45:46.197][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-03-06 23:45:46.199][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-03-06 23:45:46.200][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-03-06 23:45:46.202][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-03-06 23:45:46.204][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-03-06 23:45:46.205][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-03-06 23:45:46.207][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-03-06 23:45:46.208][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-03-06 23:45:46.210][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-03-06 23:45:46.211][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-03-06 23:45:46.213][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-03-06 23:45:46.214][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-03-06 23:45:46.216][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-03-06 23:45:46.218][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-03-06 23:45:46.219][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-03-06 23:45:46.221][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-03-06 23:45:46.222][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-03-06 23:45:46.224][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-03-06 23:45:46.225][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-03-06 23:45:46.227][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-03-06 23:45:46.229][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-03-06 23:45:46.230][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-03-06 23:45:46.232][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-03-06 23:45:46.234][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2025-03-06 23:45:46.235][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-06 23:45:46.237][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:46.238][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:46.239][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:46.240][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:46.241][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:46.242][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:46.243][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:46.244][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:46.245][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:46.246][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:46.248][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:46.249][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:46.250][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:46.251][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:46.252][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:46.253][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:46.254][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:46.255][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:46.256][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:46.257][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:46.258][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:46.260][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:46.261][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:46.262][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:46.263][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:46.264][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:46.265][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:46.266][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:46.267][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:46.268][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:46.269][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:46.271][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:46.272][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:46.273][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:46.274][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:46.275][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:46.276][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:46.277][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:46.279][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:46.280][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:46.281][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:46.282][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:46.283][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:46.284][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:46.285][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:46.286][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:46.288][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:46.289][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:46.290][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:46.291][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:46.292][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:46.293][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:46.294][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.DEBUG[2025-03-06 23:45:46.295][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:46.296][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:46.297][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:46.299][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:46.300][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:46.301][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:46.302][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[2025-03-06 23:45:46.303][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:46.304][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:46.305][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:46.306][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:46.307][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:46.309][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:46.310][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[2025-03-06 23:45:46.311][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:46.312][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:46.313][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:46.314][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:46.315][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:46.316][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:46.317][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:46.318][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:46.320][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:46.321][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:46.322][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:46.323][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:46.324][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:46.325][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:46.326][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:46.327][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:46.328][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:46.329][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:46.330][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:46.332][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:46.333][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[2025-03-06 23:45:46.334][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:46.335][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:46.336][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:46.337][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:46.338][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:46.339][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:46.340][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.DEBUG[2025-03-06 23:45:46.341][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:46.342][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:46.344][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:46.345][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:46.346][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:46.347][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:46.348][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:46.349][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:46.350][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:46.351][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:46.352][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:46.353][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:46.354][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:46.356][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:46.357][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:46.358][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:46.359][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:46.360][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:46.361][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:46.362][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:46.370][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:46.371][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:46.373][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:46.374][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:46.375][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:46.376][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:46.377][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:46.378][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:46.381][biodb$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.20-bioc/R/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-03-06 23:45:46.383][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-03-06 23:45:46.385][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-06 23:45:46.386][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-03-06 23:45:46.388][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-06 23:45:46.389][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-06 23:45:46.390][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-06 23:45:46.392][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-06 23:45:46.394][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-03-06 23:45:46.396][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-03-06 23:45:46.397][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-03-06 23:45:46.399][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-06 23:45:46.401][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-06 23:45:46.403][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-03-06 23:45:46.405][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-06 23:45:46.407][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-03-06 23:45:46.407][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-03-06 23:45:46.407][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-03-06 23:45:46.407][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-03-06 23:45:46.407][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-03-06 23:45:46.407][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-03-06 23:45:46.407][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-03-06 23:45:46.407][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-03-06 23:45:46.407][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-03-06 23:45:46.407][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-03-06 23:45:46.407][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-03-06 23:45:46.409][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-03-06 23:45:46.411][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-06 23:45:46.411][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-06 23:45:46.411][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-06 23:45:46.413][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-03-06 23:45:46.415][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 23:45:46.416][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 23:45:46.418][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-06 23:45:46.420][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 23:45:46.422][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 23:45:46.423][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-06 23:45:46.425][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-03-06 23:45:46.425][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-03-06 23:45:46.427][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-06 23:45:46.429][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-06 23:45:46.431][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-03-06 23:45:46.433][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-03-06 23:45:46.433][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-03-06 23:45:46.435][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-03-06 23:45:46.438][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-06 23:45:46.440][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-03-06 23:45:46.443][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-03-06 23:45:46.446][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-03-06 23:45:46.448][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-03-06 23:45:46.454][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-03-06 23:45:46.456][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-03-06 23:45:46.458][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-03-06 23:45:46.460][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-03-06 23:45:46.462][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-06 23:45:46.463][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-06 23:45:46.464][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-03-06 23:45:46.466][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-03-06 23:45:46.468][biodb::testThat]
biodb.INFO [2025-03-06 23:45:46.469][biodb::testThat] Running test function test.chebi.wsGetLiteEntity (" Web service getLiteEntity works fine. ").
biodb.INFO [2025-03-06 23:45:46.470][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-06 23:45:46.471][biodb::testThat]
biodb.DEBUG[2025-03-06 23:45:46.475][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-03-06 23:45:46.480][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-06 23:45:46.481][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2025-03-06 23:45:46.483][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 23:45:46.486][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2025-03-06 23:45:46.490][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-03-06 23:45:46.494][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-03-06 23:45:46.495][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-03-06 23:45:46.497][private$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[2025-03-06 23:45:46.816][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[2025-03-06 23:45:47.137][self$getBiodb()$getRequestScheduler( ...] Saving content of request to cache.
biodb.TRACE[2025-03-06 23:45:47.139][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content"
biodb.TRACE[2025-03-06 23:45:47.145][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.request"
biodb.INFO [2025-03-06 23:45:47.174][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-03-06 23:45:47.176][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-03-06 23:45:47.177][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-03-06 23:45:47.178][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-03-06 23:45:47.180][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:47.181][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:47.182][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:47.183][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:47.184][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:47.185][FUN] Functions in observer BiodbConfig: [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 [2025-03-06 23:45:47.190][biodb::testContext]
biodb.INFO [2025-03-06 23:45:47.192][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-06 23:45:47.193][biodb::testContext] Test context - Non regression tests
biodb.INFO [2025-03-06 23:45:47.195][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-06 23:45:47.196][biodb::testContext]
biodb.INFO [2025-03-06 23:45:47.199][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2025-03-06 23:45:47.202][self$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.20-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2025-03-06 23:45:47.207][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-06 23:45:47.209][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-03-06 23:45:47.210][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-03-06 23:45:47.211][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:47.212][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:47.213][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:47.214][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-03-06 23:45:47.216][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-03-06 23:45:47.217][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:47.218][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:47.219][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:47.220][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-03-06 23:45:47.221][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-03-06 23:45:47.223][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:47.224][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:47.225][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:47.226][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-03-06 23:45:47.227][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-03-06 23:45:47.229][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-03-06 23:45:47.230][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:47.231][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:47.232][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:47.233][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-03-06 23:45:47.234][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-03-06 23:45:47.236][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-03-06 23:45:47.237][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:47.238][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:47.239][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:47.240][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-03-06 23:45:47.241][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-03-06 23:45:47.243][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:47.244][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:47.245][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:47.246][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-03-06 23:45:47.247][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-03-06 23:45:47.248][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-03-06 23:45:47.249][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:47.250][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:47.252][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:47.253][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-03-06 23:45:47.254][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-03-06 23:45:47.255][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:47.256][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:47.257][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:47.258][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-03-06 23:45:47.260][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-03-06 23:45:47.261][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-03-06 23:45:47.262][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:47.263][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:47.264][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:47.266][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-03-06 23:45:47.267][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-03-06 23:45:47.268][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-03-06 23:45:47.269][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-03-06 23:45:47.271][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-03-06 23:45:47.272][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-03-06 23:45:47.274][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:47.275][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:47.276][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:47.278][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-03-06 23:45:47.280][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-03-06 23:45:47.282][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:47.283][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:47.285][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:47.286][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-03-06 23:45:47.288][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-03-06 23:45:47.290][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:47.291][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:47.293][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:47.294][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-03-06 23:45:47.296][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-03-06 23:45:47.298][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:47.300][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:47.302][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:47.303][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-03-06 23:45:47.305][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-03-06 23:45:47.307][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:47.309][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:47.311][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:47.312][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-03-06 23:45:47.314][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-03-06 23:45:47.316][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:47.318][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:47.319][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:47.321][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-03-06 23:45:47.323][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-03-06 23:45:47.326][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-03-06 23:45:47.328][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:47.329][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:47.330][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:47.331][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-03-06 23:45:47.333][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-03-06 23:45:47.334][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-03-06 23:45:47.335][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:47.336][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:47.337][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:47.338][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-03-06 23:45:47.340][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-06 23:45:47.342][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-03-06 23:45:47.343][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-06 23:45:47.344][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-06 23:45:47.345][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-06 23:45:47.347][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-06 23:45:47.348][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-06 23:45:47.349][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-06 23:45:47.350][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-06 23:45:47.352][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-06 23:45:47.353][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-06 23:45:47.354][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-03-06 23:45:47.355][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-06 23:45:47.356][self$setPropertyValue]
biodb.DEBUG[2025-03-06 23:45:47.358][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-06 23:45:47.359][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-06 23:45:47.359][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-06 23:45:47.359][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-06 23:45:47.359][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-06 23:45:47.359][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-06 23:45:47.360][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-06 23:45:47.361][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 23:45:47.363][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 23:45:47.364][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-06 23:45:47.365][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 23:45:47.366][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 23:45:47.367][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-06 23:45:47.368][self$setPropertyValue]
biodb.DEBUG[2025-03-06 23:45:47.370][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-06 23:45:47.371][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-06 23:45:47.372][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-06 23:45:47.373][self$setPropertyValue]
biodb.DEBUG[2025-03-06 23:45:47.375][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-03-06 23:45:47.377][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-06 23:45:47.378][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-03-06 23:45:47.379][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-06 23:45:47.380][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-06 23:45:47.382][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-06 23:45:47.383][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-06 23:45:47.384][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-06 23:45:47.385][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-06 23:45:47.386][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-06 23:45:47.388][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-06 23:45:47.389][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-06 23:45:47.390][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-03-06 23:45:47.391][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-06 23:45:47.392][self$setPropertyValue]
biodb.DEBUG[2025-03-06 23:45:47.394][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-06 23:45:47.395][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-06 23:45:47.395][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-06 23:45:47.395][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-06 23:45:47.395][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-06 23:45:47.395][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-06 23:45:47.396][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-06 23:45:47.397][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 23:45:47.398][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 23:45:47.400][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-06 23:45:47.401][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 23:45:47.402][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 23:45:47.403][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-06 23:45:47.404][self$setPropertyValue]
biodb.DEBUG[2025-03-06 23:45:47.406][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-06 23:45:47.407][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-06 23:45:47.408][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-06 23:45:47.409][self$setPropertyValue]
biodb.DEBUG[2025-03-06 23:45:47.411][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-03-06 23:45:47.413][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-06 23:45:47.414][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-03-06 23:45:47.415][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-06 23:45:47.416][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-06 23:45:47.417][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-06 23:45:47.419][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-06 23:45:47.420][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-06 23:45:47.421][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-06 23:45:47.422][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-06 23:45:47.424][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-06 23:45:47.425][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-06 23:45:47.426][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-03-06 23:45:47.427][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-06 23:45:47.429][self$setPropertyValue]
biodb.DEBUG[2025-03-06 23:45:47.430][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-06 23:45:47.431][self$setPropertyValue]
biodb.DEBUG[2025-03-06 23:45:47.432][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-06 23:45:47.433][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 23:45:47.435][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 23:45:47.436][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-06 23:45:47.437][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 23:45:47.438][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 23:45:47.439][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-06 23:45:47.440][self$setPropertyValue]
biodb.DEBUG[2025-03-06 23:45:47.442][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-06 23:45:47.443][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-06 23:45:47.444][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-06 23:45:47.445][self$setPropertyValue]
biodb.DEBUG[2025-03-06 23:45:47.447][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-03-06 23:45:47.449][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-06 23:45:47.450][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-03-06 23:45:47.451][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-06 23:45:47.452][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-06 23:45:47.454][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-06 23:45:47.455][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-06 23:45:47.456][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-06 23:45:47.458][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-06 23:45:47.459][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-06 23:45:47.460][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-06 23:45:47.461][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-06 23:45:47.462][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-03-06 23:45:47.464][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-06 23:45:47.465][self$setPropertyValue]
biodb.DEBUG[2025-03-06 23:45:47.466][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-06 23:45:47.467][self$setPropertyValue]
biodb.DEBUG[2025-03-06 23:45:47.468][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-06 23:45:47.470][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 23:45:47.471][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 23:45:47.472][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-06 23:45:47.473][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 23:45:47.475][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 23:45:47.476][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-06 23:45:47.477][self$setPropertyValue]
biodb.DEBUG[2025-03-06 23:45:47.479][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-06 23:45:47.480][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-06 23:45:47.481][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-06 23:45:47.482][self$setPropertyValue]
biodb.DEBUG[2025-03-06 23:45:47.484][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-06 23:45:47.485][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:47.486][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[2025-03-06 23:45:47.487][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:47.488][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:47.489][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:47.490][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:47.492][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:47.493][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:47.494][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:47.504][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:47.506][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:47.507][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:47.508][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:47.509][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:47.510][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:47.512][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:47.513][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:47.514][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:47.515][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:47.516][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:47.517][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:47.518][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:47.520][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:47.521][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:47.522][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:47.523][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:47.524][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[2025-03-06 23:45:47.525][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:47.526][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:47.527][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:47.528][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:47.529][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:47.531][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:47.532][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:47.533][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:47.534][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:47.535][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:47.536][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:47.537][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:47.538][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:47.539][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:47.540][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:47.542][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:47.543][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:47.544][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:47.545][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:47.546][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.DEBUG[2025-03-06 23:45:47.547][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:47.548][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:47.549][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:47.551][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:47.552][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:47.554][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:47.556][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:47.558][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:47.559][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:47.561][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:47.563][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:47.565][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:47.566][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:47.567][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:47.569][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[2025-03-06 23:45:47.570][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:47.571][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:47.572][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:47.573][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:47.574][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[2025-03-06 23:45:47.575][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:47.577][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:47.578][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:47.579][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:47.580][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:47.581][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:47.582][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:47.583][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:47.584][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:47.585][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:47.586][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:47.587][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:47.588][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:47.590][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:47.591][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:47.592][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:47.593][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:47.594][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:47.595][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:47.596][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:47.597][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-03-06 23:45:47.599][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-03-06 23:45:47.600][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-03-06 23:45:47.602][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-03-06 23:45:47.604][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-03-06 23:45:47.605][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-03-06 23:45:47.607][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-03-06 23:45:47.608][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-03-06 23:45:47.610][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-03-06 23:45:47.611][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-03-06 23:45:47.613][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-06 23:45:47.614][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-03-06 23:45:47.616][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-03-06 23:45:47.617][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-03-06 23:45:47.619][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-03-06 23:45:47.621][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-03-06 23:45:47.622][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-03-06 23:45:47.624][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-03-06 23:45:47.625][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-03-06 23:45:47.627][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-03-06 23:45:47.629][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-03-06 23:45:47.630][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-03-06 23:45:47.632][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-03-06 23:45:47.633][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-03-06 23:45:47.635][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-03-06 23:45:47.636][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-03-06 23:45:47.638][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-03-06 23:45:47.639][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-03-06 23:45:47.641][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-03-06 23:45:47.643][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-03-06 23:45:47.644][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-03-06 23:45:47.646][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-03-06 23:45:47.647][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-03-06 23:45:47.649][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-03-06 23:45:47.650][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-03-06 23:45:47.652][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-03-06 23:45:47.654][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-03-06 23:45:47.655][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-03-06 23:45:47.657][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-03-06 23:45:47.658][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-03-06 23:45:47.660][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-03-06 23:45:47.661][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-03-06 23:45:47.663][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-03-06 23:45:47.665][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-03-06 23:45:47.666][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-03-06 23:45:47.668][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-03-06 23:45:47.670][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-03-06 23:45:47.671][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-03-06 23:45:47.673][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-03-06 23:45:47.674][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-03-06 23:45:47.676][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-03-06 23:45:47.677][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-03-06 23:45:47.679][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-03-06 23:45:47.681][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-03-06 23:45:47.682][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-03-06 23:45:47.684][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-03-06 23:45:47.685][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-03-06 23:45:47.687][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-03-06 23:45:47.688][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-03-06 23:45:47.690][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-03-06 23:45:47.691][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-03-06 23:45:47.693][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-03-06 23:45:47.694][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-03-06 23:45:47.696][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-03-06 23:45:47.698][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-03-06 23:45:47.699][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-03-06 23:45:47.701][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-03-06 23:45:47.702][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-03-06 23:45:47.704][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-03-06 23:45:47.705][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-03-06 23:45:47.707][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-03-06 23:45:47.708][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-03-06 23:45:47.710][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-03-06 23:45:47.712][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-03-06 23:45:47.713][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-03-06 23:45:47.715][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-03-06 23:45:47.716][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-03-06 23:45:47.718][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-03-06 23:45:47.719][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-03-06 23:45:47.721][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-03-06 23:45:47.723][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-03-06 23:45:47.724][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-03-06 23:45:47.726][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-03-06 23:45:47.727][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-03-06 23:45:47.730][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2025-03-06 23:45:47.731][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-06 23:45:47.732][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:47.733][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:47.734][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:47.735][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[2025-03-06 23:45:47.736][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:47.737][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:47.739][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:47.740][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:47.741][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:47.742][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:47.743][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:47.744][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:47.745][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:47.746][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:47.747][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:47.748][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:47.749][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:47.750][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:47.751][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:47.753][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:47.754][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:47.755][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:47.756][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:47.757][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:47.758][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:47.759][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:47.760][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:47.761][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:47.762][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:47.763][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:47.764][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:47.766][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:47.767][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:47.768][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:47.769][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:47.770][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:47.771][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:47.772][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:47.773][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:47.774][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:47.775][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:47.776][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:47.778][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:47.779][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:47.781][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:47.782][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:47.783][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:47.784][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:47.785][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:47.787][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:47.788][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:47.790][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:47.791][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[2025-03-06 23:45:47.793][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:47.795][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:47.796][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:47.798][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:47.799][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:47.800][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:47.801][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:47.802][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:47.803][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:47.804][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:47.805][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:47.807][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:47.808][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:47.809][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[2025-03-06 23:45:47.810][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:47.811][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:47.812][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:47.813][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:47.814][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:47.815][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:47.816][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[2025-03-06 23:45:47.818][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:47.819][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:47.820][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:47.821][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:47.822][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:47.823][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:47.824][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:47.825][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:47.826][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:47.827][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:47.828][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:47.829][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:47.830][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:47.831][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:47.833][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:47.834][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:47.835][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:47.836][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:47.837][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:47.838][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:47.839][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[2025-03-06 23:45:47.840][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:47.841][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:47.842][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:47.843][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:47.844][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:47.845][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:47.847][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:47.848][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:47.849][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:47.850][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:47.851][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:47.852][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:47.853][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:47.854][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[2025-03-06 23:45:47.855][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:47.856][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:47.857][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:47.859][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:47.860][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:47.861][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:47.862][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:47.863][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-06 23:45:47.865][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:47.867][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:47.868][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:47.870][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:47.872][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:47.873][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-06 23:45:47.878][biodb$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.20-bioc/R/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-03-06 23:45:47.881][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-03-06 23:45:47.884][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-06 23:45:47.886][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-03-06 23:45:47.888][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-06 23:45:47.890][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-06 23:45:47.891][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-06 23:45:47.893][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-06 23:45:47.895][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-03-06 23:45:47.897][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-03-06 23:45:47.899][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-03-06 23:45:47.901][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-06 23:45:47.903][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-06 23:45:47.905][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-03-06 23:45:47.907][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-06 23:45:47.909][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-03-06 23:45:47.909][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-03-06 23:45:47.909][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-03-06 23:45:47.909][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-03-06 23:45:47.909][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-03-06 23:45:47.909][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-03-06 23:45:47.909][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-03-06 23:45:47.909][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-03-06 23:45:47.909][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-03-06 23:45:47.909][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-03-06 23:45:47.909][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-03-06 23:45:47.911][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-03-06 23:45:47.913][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-06 23:45:47.913][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-06 23:45:47.913][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-06 23:45:47.915][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-03-06 23:45:47.916][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 23:45:47.918][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 23:45:47.920][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-06 23:45:47.922][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-06 23:45:47.924][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-06 23:45:47.925][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-06 23:45:47.927][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-03-06 23:45:47.927][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-03-06 23:45:47.929][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-06 23:45:47.941][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-06 23:45:47.943][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-03-06 23:45:47.946][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-03-06 23:45:47.946][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-03-06 23:45:47.948][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-03-06 23:45:47.951][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-06 23:45:47.954][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-03-06 23:45:47.957][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-03-06 23:45:47.960][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-03-06 23:45:47.963][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-03-06 23:45:47.968][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-03-06 23:45:47.970][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-03-06 23:45:47.972][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-03-06 23:45:47.975][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-03-06 23:45:47.978][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-06 23:45:47.979][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-06 23:45:47.982][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-03-06 23:45:47.984][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-03-06 23:45:47.987][biodb::testThat]
biodb.INFO [2025-03-06 23:45:47.989][biodb::testThat] Running test function test.chebi.encoding.issue.in.xml (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2025-03-06 23:45:47.991][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-06 23:45:47.992][biodb::testThat]
biodb.DEBUG[2025-03-06 23:45:47.998][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-03-06 23:45:48.006][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-06 23:45:48.009][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2025-03-06 23:45:48.011][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 23:45:48.015][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2025-03-06 23:45:48.022][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[2025-03-06 23:45:48.028][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-06 23:45:48.030][cch$loadFileContent] Trying to load 1 files from cache: [1]: "04c26672f8368e71348af4b34238160e".
biodb.TRACE[2025-03-06 23:45:48.033][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-06 23:45:48.036][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content".
biodb.DEBUG[2025-03-06 23:45:48.044][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2025-03-06 23:45:48.046][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-06 23:45:48.049][cch$loadFileContent] Trying to load 1 files from cache: [1]: "2571".
biodb.TRACE[2025-03-06 23:45:48.052][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-03-06 23:45:48.054][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-03-06 23:45:48.056][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-06 23:45:48.058][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-03-06 23:45:48.060][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-03-06 23:45:48.062][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-03-06 23:45:48.066][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:48.068][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:48.069][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:48.084][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:48.085][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:48.086][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:48.087][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[2025-03-06 23:45:48.089][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2571".
biodb.DEBUG[2025-03-06 23:45:48.092][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-03-06 23:45:48.093][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-03-06 23:45:48.095][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2571".
biodb.TRACE[2025-03-06 23:45:48.477][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=2571).
biodb.DEBUG[2025-03-06 23:45:49.076][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-03-06 23:45:49.081][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/52df2611aa7f9f4c531cce8ac62e2fa0.content"
biodb.TRACE[2025-03-06 23:45:49.090][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/52df2611aa7f9f4c531cce8ac62e2fa0.request"
biodb.TRACE[2025-03-06 23:45:49.097][private$doSaveContentToFile] Saving to cache [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml"
biodb.DEBUG[2025-03-06 23:45:49.102][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-03-06 23:45:49.105][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-06 23:45:49.108][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-06 23:45:49.112][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-06 23:45:49.114][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:49.116][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:49.127][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:49.129][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:49.131][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:49.133][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-06 23:45:49.142][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:49.145][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:49.147][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:49.149][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:49.151][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:49.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:49.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:49.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:49.161][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 23:45:49.163][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 23:45:49.165][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:49.167][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:49.170][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-06 23:45:49.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-06 23:45:49.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:49.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:49.179][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 23:45:49.181][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 23:45:49.183][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:49.185][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:49.188][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-06 23:45:49.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-06 23:45:49.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:49.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:49.195][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-06 23:45:49.197][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-06 23:45:49.198][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:49.199][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:49.202][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-06 23:45:49.204][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-06 23:45:49.206][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:49.208][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:49.210][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:45:49.213][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:45:49.215][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:49.217][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:49.220][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:45:49.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-06 23:45:49.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:49.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:49.228][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 23:45:49.229][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:49.230][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:49.232][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:49.234][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-06 23:45:49.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-06 23:45:49.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:49.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:49.241][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:49.243][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:49.244][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:49.246][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:49.248][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:49.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-06 23:45:49.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:49.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:49.253][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-06 23:45:49.255][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 23:45:49.256][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:49.257][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:49.260][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-06 23:45:49.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-06 23:45:49.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:49.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:49.265][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 23:45:49.266][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 23:45:49.268][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:49.269][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:49.271][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-06 23:45:49.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-06 23:45:49.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:49.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:49.276][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 23:45:49.278][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 23:45:49.279][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:49.280][ef$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:49.282][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-06 23:45:49.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-06 23:45:49.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:49.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:49.287][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:49.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:49.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:49.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:49.292][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:49.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:49.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:49.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:49.297][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:49.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:49.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:49.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:49.303][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-06 23:45:49.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-06 23:45:49.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:49.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:49.308][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:49.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:49.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:49.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:49.313][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:49.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:49.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:49.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:49.318][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:49.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:49.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:49.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:49.324][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:49.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:49.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:49.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:49.328][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:49.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:49.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:49.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-06 23:45:49.333][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-06 23:45:49.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-06 23:45:49.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-06 23:45:49.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-06 23:45:49.338][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2025-03-06 23:45:49.377][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-03-06 23:45:49.379][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-03-06 23:45:49.380][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-03-06 23:45:49.381][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-03-06 23:45:49.383][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-06 23:45:49.385][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-06 23:45:49.386][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-06 23:45:49.388][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-06 23:45:49.390][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-03-06 23:45:49.392][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".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 386 ]
>
> proc.time()
user system elapsed
24.34 2.20 58.87
biodbChebi.Rcheck/biodbChebi-Ex.timings
| name | user | system | elapsed | |
| ChebiConn | 3.52 | 2.29 | 85.86 | |
| ChebiEntry | 0.65 | 0.00 | 0.66 | |