Pierrick Roger
| Snapshot Date: 2025-03-20 13:40 -0400 (Thu, 20 Mar 2025) |
| git_url: https://git.bioconductor.org/packages/biodbChebi |
| git_branch: devel |
| git_last_commit: 686a27c |
| git_last_commit_date: 2024-10-29 11:04:36 -0400 (Tue, 29 Oct 2024) |
| Back to Multiple platform build/check report for BioC 3.21: simplified long |
|
This page was generated on 2025-03-21 11:46 -0400 (Fri, 21 Mar 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | R Under development (unstable) (2025-03-13 r87965) -- "Unsuffered Consequences" | 4777 |
| palomino7 | Windows Server 2022 Datacenter | x64 | R Under development (unstable) (2025-03-01 r87860 ucrt) -- "Unsuffered Consequences" | 4545 |
| lconway | macOS 12.7.1 Monterey | x86_64 | R Under development (unstable) (2025-03-02 r87868) -- "Unsuffered Consequences" | 4576 |
| kjohnson3 | macOS 13.7.1 Ventura | arm64 | R Under development (unstable) (2025-03-02 r87868) -- "Unsuffered Consequences" | 4528 |
| kunpeng2 | Linux (openEuler 24.03 LTS) | aarch64 | R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences" | 4458 |
| 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 204/2313 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| biodbChebi 1.13.0 (landing page) Pierrick Roger
| nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | OK | | ||||||||
| palomino7 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | | ||||||||
| lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | OK | OK | | ||||||||
| kjohnson3 | macOS 13.7.1 Ventura / arm64 | OK | OK | OK | OK | | ||||||||
| kunpeng2 | 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. - See Martin Grigorov's blog post for how to debug Linux ARM64 related issues on a x86_64 host. |
| Package: biodbChebi |
| Version: 1.13.0 |
| Command: /home/biocbuild/R/R/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings biodbChebi_1.13.0.tar.gz |
| StartedAt: 2025-03-21 04:28:21 -0000 (Fri, 21 Mar 2025) |
| EndedAt: 2025-03-21 04:39:26 -0000 (Fri, 21 Mar 2025) |
| EllapsedTime: 665.7 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: biodbChebi.Rcheck |
| Warnings: 0 |
##############################################################################
##############################################################################
###
### Running command:
###
### /home/biocbuild/R/R/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings biodbChebi_1.13.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/home/biocbuild/bbs-3.21-bioc/meat/biodbChebi.Rcheck’
* using R Under development (unstable) (2025-02-19 r87757)
* using platform: aarch64-unknown-linux-gnu
* R was compiled by
aarch64-unknown-linux-gnu-gcc (GCC) 14.2.0
GNU Fortran (GCC) 14.2.0
* running under: openEuler 24.03 (LTS-SP1)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘biodbChebi/DESCRIPTION’ ... OK
* this is package ‘biodbChebi’ version ‘1.13.0’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘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 loading without being on the library search path ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... 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
* 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: ### ### /home/biocbuild/R/R/bin/R CMD INSTALL biodbChebi ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/R/R-devel_2025-02-19/site-library’ * installing *source* package ‘biodbChebi’ ... ** this is package ‘biodbChebi’ version ‘1.13.0’ ** 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 Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: aarch64-unknown-linux-gnu
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 [2025-03-21 04:38:44.476][biodb::testContext]
biodb.INFO [2025-03-21 04:38:44.479][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-21 04:38:44.481][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-03-21 04:38:44.482][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-21 04:38:44.484][biodb::testContext]
biodb.INFO [2025-03-21 04:38:44.493][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.15.0.
biodb.DEBUG[2025-03-21 04:38:44.496][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-devel_2025-02-19/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-03-21 04:38:44.505][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-21 04:38:44.507][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-03-21 04:38:44.509][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-03-21 04:38:44.510][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:38:44.512][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:38:44.513][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:38:44.515][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-03-21 04:38:44.544][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-03-21 04:38:44.546][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:38:44.547][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:38:44.549][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:38:44.551][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-03-21 04:38:44.552][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-03-21 04:38:44.554][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:38:44.555][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:38:44.557][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:38:44.559][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-03-21 04:38:44.560][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-03-21 04:38:44.562][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-03-21 04:38:44.564][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:38:44.565][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:38:44.567][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:38:44.568][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-03-21 04:38:44.570][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-03-21 04:38:44.572][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-03-21 04:38:44.573][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:38:44.575][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:38:44.576][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:38:44.578][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-03-21 04:38:44.580][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-03-21 04:38:44.581][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:38:44.583][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:38:44.584][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[2025-03-21 04:38:44.586][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-03-21 04:38:44.588][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-03-21 04:38:44.590][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-03-21 04:38:44.591][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:38:44.593][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:38:44.594][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:38:44.596][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-03-21 04:38:44.598][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-03-21 04:38:44.599][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:38:44.601][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:38:44.602][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:38:44.604][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-03-21 04:38:44.605][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-03-21 04:38:44.607][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-03-21 04:38:44.609][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:38:44.610][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:38:44.612][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:38:44.614][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-03-21 04:38:44.615][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-03-21 04:38:44.617][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-03-21 04:38:44.619][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-03-21 04:38:44.621][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-03-21 04:38:44.622][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-03-21 04:38:44.624][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:38:44.626][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:38:44.627][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:38:44.629][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-03-21 04:38:44.631][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-03-21 04:38:44.632][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:38:44.634][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:38:44.635][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:38:44.637][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-03-21 04:38:44.639][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-03-21 04:38:44.640][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:38:44.642][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:38:44.643][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[2025-03-21 04:38:44.645][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-03-21 04:38:44.647][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-03-21 04:38:44.648][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:38:44.650][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:38:44.651][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:38:44.653][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-03-21 04:38:44.655][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-03-21 04:38:44.657][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:38:44.658][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:38:44.659][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[2025-03-21 04:38:44.661][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-03-21 04:38:44.663][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-03-21 04:38:44.664][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:38:44.666][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:38:44.667][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:38:44.668][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-03-21 04:38:44.670][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-03-21 04:38:44.676][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-03-21 04:38:44.677][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:38:44.679][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:38:44.680][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[2025-03-21 04:38:44.682][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-03-21 04:38:44.683][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-03-21 04:38:44.685][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-03-21 04:38:44.686][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:38:44.687][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:38:44.689][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:38:44.693][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-03-21 04:38:44.744][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-21 04:38:44.769][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-03-21 04:38:44.771][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-21 04:38:44.783][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-21 04:38:44.784][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-21 04:38:44.786][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-21 04:38:44.787][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-21 04:38:44.788][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-21 04:38:44.790][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-21 04:38:44.791][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-21 04:38:44.792][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-21 04:38:44.794][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-03-21 04:38:44.795][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-21 04:38:44.796][self$setPropertyValue]
biodb.DEBUG[2025-03-21 04:38:44.798][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-21 04:38:44.799][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-21 04:38:44.799][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-21 04:38:44.799][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-21 04:38:44.799][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-21 04:38:44.799][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-21 04:38:44.801][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-21 04:38:44.802][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 04:38:44.803][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 04:38:44.805][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-21 04:38:44.806][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 04:38:44.808][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 04:38:44.809][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-21 04:38:44.811][self$setPropertyValue]
biodb.DEBUG[2025-03-21 04:38:44.812][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-21 04:38:44.813][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-21 04:38:44.815][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-21 04:38:44.816][self$setPropertyValue]
biodb.DEBUG[2025-03-21 04:38:44.818][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-03-21 04:38:44.821][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-21 04:38:44.822][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-03-21 04:38:44.824][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-21 04:38:44.825][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-21 04:38:44.827][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-21 04:38:44.828][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-21 04:38:44.830][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-21 04:38:44.831][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-21 04:38:44.832][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-21 04:38:44.834][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-21 04:38:44.835][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-21 04:38:44.837][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-03-21 04:38:44.838][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-21 04:38:44.840][self$setPropertyValue]
biodb.DEBUG[2025-03-21 04:38:44.841][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-21 04:38:44.842][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-21 04:38:44.842][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-21 04:38:44.842][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-21 04:38:44.842][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-21 04:38:44.842][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-21 04:38:44.844][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-21 04:38:44.845][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 04:38:44.847][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 04:38:44.848][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-21 04:38:44.849][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 04:38:44.851][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 04:38:44.852][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-21 04:38:44.853][self$setPropertyValue]
biodb.DEBUG[2025-03-21 04:38:44.855][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-21 04:38:44.856][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-21 04:38:44.857][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-21 04:38:44.859][self$setPropertyValue]
biodb.DEBUG[2025-03-21 04:38:44.860][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-03-21 04:38:44.863][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-21 04:38:44.864][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-03-21 04:38:44.866][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-21 04:38:44.867][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-21 04:38:44.869][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-21 04:38:44.870][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-21 04:38:44.871][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-21 04:38:44.873][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-21 04:38:44.874][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-21 04:38:44.876][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-21 04:38:44.877][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-21 04:38:44.878][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-03-21 04:38:44.880][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-21 04:38:44.881][self$setPropertyValue]
biodb.DEBUG[2025-03-21 04:38:44.883][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-21 04:38:44.884][self$setPropertyValue]
biodb.DEBUG[2025-03-21 04:38:44.885][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-21 04:38:44.887][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 04:38:44.888][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 04:38:44.889][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-21 04:38:44.891][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 04:38:44.892][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 04:38:44.893][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-21 04:38:44.894][self$setPropertyValue]
biodb.DEBUG[2025-03-21 04:38:44.896][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-21 04:38:44.897][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-21 04:38:44.898][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-21 04:38:44.900][self$setPropertyValue]
biodb.DEBUG[2025-03-21 04:38:44.901][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-03-21 04:38:44.904][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-21 04:38:44.905][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-03-21 04:38:44.907][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-21 04:38:44.908][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-21 04:38:44.909][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-21 04:38:44.911][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-21 04:38:44.912][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-21 04:38:44.914][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-21 04:38:44.915][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-21 04:38:44.916][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-21 04:38:44.918][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-21 04:38:44.919][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-03-21 04:38:44.921][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-21 04:38:44.922][self$setPropertyValue]
biodb.DEBUG[2025-03-21 04:38:44.923][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-21 04:38:44.925][self$setPropertyValue]
biodb.DEBUG[2025-03-21 04:38:44.926][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-21 04:38:44.927][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 04:38:44.929][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 04:38:44.930][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-21 04:38:44.931][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 04:38:44.933][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 04:38:44.934][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-21 04:38:44.935][self$setPropertyValue]
biodb.DEBUG[2025-03-21 04:38:44.937][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-21 04:38:44.938][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-21 04:38:44.939][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-21 04:38:44.941][self$setPropertyValue]
biodb.DEBUG[2025-03-21 04:38:44.946][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-21 04:38:44.947][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:38:44.948][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[2025-03-21 04:38:44.950][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:38:44.951][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:38:44.952][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:38:44.953][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:38:44.955][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[2025-03-21 04:38:44.956][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:38:44.957][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:38:44.958][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:38:44.960][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:38:44.961][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:38:44.962][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:38:44.963][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:38:44.965][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:38:44.966][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:38:44.967][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:38:44.968][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:38:44.970][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:38:44.971][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:38:44.972][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:38:44.973][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[2025-03-21 04:38:44.975][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:38:44.976][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:38:44.977][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:38:44.978][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:38:44.980][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:38:44.981][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:38:44.982][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:38:44.984][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:38:44.985][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:38:44.986][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[2025-03-21 04:38:44.987][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:38:44.989][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:38:44.990][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:38:44.991][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:38:44.992][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:38:44.994][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:38:44.995][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:38:44.996][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:38:44.997][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:38:44.999][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:38:45.000][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:38:45.001][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:38:45.002][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:38:45.004][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:38:45.005][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:38:45.006][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:38:45.007][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:38:45.009][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:38:45.010][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:38:45.011][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[2025-03-21 04:38:45.013][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:38:45.014][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:38:45.015][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:38:45.016][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:38:45.018][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[2025-03-21 04:38:45.019][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:38:45.020][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:38:45.021][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:38:45.023][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:38:45.024][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[2025-03-21 04:38:45.025][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:38:45.027][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:38:45.028][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:38:45.029][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:38:45.030][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:38:45.032][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:38:45.033][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:38:45.034][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:38:45.035][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:38:45.037][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:38:45.038][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:38:45.039][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:38:45.040][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:38:45.042][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:38:45.043][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:38:45.044][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:38:45.045][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:38:45.047][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:38:45.048][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:38:45.049][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.DEBUG[2025-03-21 04:38:45.050][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:38:45.051][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:38:45.053][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:38:45.054][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:38:45.055][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[2025-03-21 04:38:45.057][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-03-21 04:38:45.063][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-03-21 04:38:45.065][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-03-21 04:38:45.067][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-03-21 04:38:45.069][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-03-21 04:38:45.071][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-03-21 04:38:45.073][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-03-21 04:38:45.075][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-03-21 04:38:45.077][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-03-21 04:38:45.079][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-03-21 04:38:45.081][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-21 04:38:45.083][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-03-21 04:38:45.085][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-03-21 04:38:45.087][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-03-21 04:38:45.089][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-03-21 04:38:45.091][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-03-21 04:38:45.093][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-03-21 04:38:45.095][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-03-21 04:38:45.097][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-03-21 04:38:45.099][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-03-21 04:38:45.101][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-03-21 04:38:45.103][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-03-21 04:38:45.105][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-03-21 04:38:45.107][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-03-21 04:38:45.109][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-03-21 04:38:45.111][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-03-21 04:38:45.113][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-03-21 04:38:45.115][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-03-21 04:38:45.117][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-03-21 04:38:45.119][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-03-21 04:38:45.121][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-03-21 04:38:45.123][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-03-21 04:38:45.125][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-03-21 04:38:45.127][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-03-21 04:38:45.129][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-03-21 04:38:45.131][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-03-21 04:38:45.133][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-03-21 04:38:45.135][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-03-21 04:38:45.137][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-03-21 04:38:45.139][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-03-21 04:38:45.141][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-03-21 04:38:45.143][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-03-21 04:38:45.144][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-03-21 04:38:45.146][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-03-21 04:38:45.148][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-03-21 04:38:45.150][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-03-21 04:38:45.159][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-03-21 04:38:45.162][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-03-21 04:38:45.164][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-03-21 04:38:45.166][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-03-21 04:38:45.168][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-03-21 04:38:45.170][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-03-21 04:38:45.172][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-03-21 04:38:45.174][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-03-21 04:38:45.176][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-03-21 04:38:45.178][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-03-21 04:38:45.180][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-03-21 04:38:45.182][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-03-21 04:38:45.184][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-03-21 04:38:45.186][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-03-21 04:38:45.188][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-03-21 04:38:45.190][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-03-21 04:38:45.192][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-03-21 04:38:45.194][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-03-21 04:38:45.196][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-03-21 04:38:45.198][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-03-21 04:38:45.200][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-03-21 04:38:45.202][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-03-21 04:38:45.204][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-03-21 04:38:45.206][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-03-21 04:38:45.208][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-03-21 04:38:45.210][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-03-21 04:38:45.212][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-03-21 04:38:45.214][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-03-21 04:38:45.216][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-03-21 04:38:45.218][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-03-21 04:38:45.220][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-03-21 04:38:45.222][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-03-21 04:38:45.224][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-03-21 04:38:45.226][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-03-21 04:38:45.227][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-03-21 04:38:45.229][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-03-21 04:38:45.231][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-03-21 04:38:45.240][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-03-21 04:38:45.242][initialize] This is biodb version 1.15.0.
biodb.DEBUG[2025-03-21 04:38:45.246][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-21 04:38:45.247][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:38:45.249][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:38:45.250][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:38:45.251][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:38:45.258][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:38:45.259][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:38:45.260][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:38:45.262][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:38:45.263][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:38:45.264][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:38:45.265][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[2025-03-21 04:38:45.267][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:38:45.268][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:38:45.269][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:38:45.270][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:38:45.272][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:38:45.273][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:38:45.274][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.DEBUG[2025-03-21 04:38:45.275][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:38:45.277][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:38:45.278][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:38:45.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:38:45.280][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:38:45.282][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:38:45.283][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:38:45.284][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:38:45.285][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:38:45.287][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:38:45.288][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:38:45.289][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:38:45.290][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:38:45.292][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[2025-03-21 04:38:45.293][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:38:45.294][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:38:45.295][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:38:45.297][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:38:45.298][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:38:45.299][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:38:45.301][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:38:45.302][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:38:45.303][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:38:45.304][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:38:45.306][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:38:45.307][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:38:45.308][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:38:45.309][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.DEBUG[2025-03-21 04:38:45.311][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:38:45.312][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:38:45.313][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:38:45.314][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:38:45.316][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:38:45.317][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:38:45.318][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[2025-03-21 04:38:45.319][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:38:45.321][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:38:45.322][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:38:45.323][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:38:45.324][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:38:45.326][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:38:45.327][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:38:45.328][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:38:45.329][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:38:45.330][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:38:45.332][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:38:45.333][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:38:45.334][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:38:45.335][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[2025-03-21 04:38:45.337][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:38:45.338][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:38:45.339][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:38:45.340][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:38:45.342][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:38:45.343][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:38:45.344][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:38:45.345][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:38:45.347][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:38:45.348][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:38:45.349][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:38:45.350][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:38:45.352][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:38:45.353][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.DEBUG[2025-03-21 04:38:45.354][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:38:45.355][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:38:45.357][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:38:45.358][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:38:45.359][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:38:45.360][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:38:45.361][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:38:45.363][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:38:45.364][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:38:45.365][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:38:45.366][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:38:45.368][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:38:45.369][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:38:45.370][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[2025-03-21 04:38:45.371][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:38:45.373][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:38:45.374][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:38:45.375][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:38:45.376][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:38:45.377][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:38:45.379][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:38:45.380][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:38:45.381][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:38:45.382][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:38:45.384][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:38:45.385][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:38:45.386][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:38:45.387][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:38:45.388][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:38:45.390][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:38:45.391][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:38:45.392][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:38:45.393][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:38:45.395][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:38:45.396][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:38:45.397][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:38:45.398][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:38:45.400][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:38:45.401][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:38:45.402][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:38:45.403][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:38:45.405][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:38:45.407][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-devel_2025-02-19/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-03-21 04:38:45.420][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-03-21 04:38:45.423][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-21 04:38:45.424][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-03-21 04:38:45.426][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-21 04:38:45.427][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-21 04:38:45.428][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-21 04:38:45.430][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-21 04:38:45.431][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-03-21 04:38:45.432][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-03-21 04:38:45.433][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-03-21 04:38:45.435][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-21 04:38:45.436][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-21 04:38:45.438][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-03-21 04:38:45.439][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-21 04:38:45.440][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-03-21 04:38:45.440][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-03-21 04:38:45.440][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-03-21 04:38:45.440][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-03-21 04:38:45.440][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-03-21 04:38:45.440][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-03-21 04:38:45.440][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-03-21 04:38:45.440][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-03-21 04:38:45.440][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-03-21 04:38:45.440][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-03-21 04:38:45.440][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-03-21 04:38:45.442][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-03-21 04:38:45.443][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-21 04:38:45.443][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-21 04:38:45.443][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-21 04:38:45.444][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-03-21 04:38:45.446][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 04:38:45.447][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 04:38:45.448][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-21 04:38:45.450][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 04:38:45.451][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 04:38:45.452][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-21 04:38:45.454][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-03-21 04:38:45.454][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-03-21 04:38:45.455][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-21 04:38:45.456][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-21 04:38:45.457][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-03-21 04:38:45.459][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-03-21 04:38:45.459][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-03-21 04:38:45.467][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-03-21 04:38:45.470][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-21 04:38:45.472][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-03-21 04:38:45.474][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-03-21 04:38:45.476][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-03-21 04:38:45.478][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-03-21 04:38:45.508][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-03-21 04:38:45.510][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-03-21 04:38:45.515][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-03-21 04:38:45.521][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-03-21 04:38:45.536][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-21 04:38:45.538][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-21 04:38:45.540][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-03-21 04:38:45.541][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-03-21 04:38:45.553][biodb::testThat]
biodb.INFO [2025-03-21 04:38:45.554][biodb::testThat] Running test function test.entry.fields (" Entry fields have a correct value ").
biodb.INFO [2025-03-21 04:38:45.556][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-21 04:38:45.557][biodb::testThat]
biodb.TRACE[2025-03-21 04:38:45.562][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/R/R-devel_2025-02-19/site-library/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2025-03-21 04:38:45.565][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-21 04:38:45.569][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-21 04:38:45.580][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:38:45.581][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:38:45.582][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:38:45.598][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:38:45.600][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:38:45.601][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:38:45.602][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:38:45.614][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:38:45.616][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:38:45.617][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:45.618][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:45.621][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:38:45.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:38:45.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:45.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:45.643][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 04:38:45.644][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 04:38:45.646][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:45.647][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:45.685][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 04:38:45.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 04:38:45.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:45.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:45.692][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 04:38:45.694][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 04:38:45.695][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:45.696][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:45.698][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 04:38:45.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 04:38:45.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:45.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:45.704][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 04:38:45.706][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 04:38:45.707][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:45.709][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:45.711][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 04:38:45.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 04:38:45.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:45.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:45.716][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 04:38:45.718][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 04:38:45.719][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:45.721][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:45.722][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 04:38:45.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 04:38:45.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:45.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:45.728][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:38:45.730][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:38:45.731][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:45.732][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:45.734][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:38:45.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:38:45.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:45.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:45.740][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 04:38:45.742][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:45.743][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:45.744][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:45.746][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 04:38:45.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:45.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:45.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:45.752][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:38:45.753][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:38:45.755][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:45.756][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:45.758][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:38:45.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:38:45.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:45.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:45.764][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 04:38:45.765][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 04:38:45.766][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:45.768][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:45.770][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 04:38:45.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 04:38:45.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:45.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:45.775][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 04:38:45.777][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 04:38:45.778][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:45.780][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:45.781][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 04:38:45.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 04:38:45.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:45.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:45.787][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 04:38:45.789][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 04:38:45.790][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:45.791][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:45.793][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 04:38:45.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 04:38:45.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:45.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:45.799][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:38:45.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:38:45.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:45.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:45.805][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:38:45.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:38:45.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:45.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:45.810][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:38:45.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:38:45.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:45.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:45.816][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:38:45.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:38:45.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:45.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:45.821][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:38:45.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:38:45.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:45.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:45.827][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:38:45.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:38:45.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:45.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:45.832][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:38:45.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:38:45.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:45.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:45.917][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:38:45.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:38:45.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:45.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:45.923][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:38:45.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:38:45.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:45.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:45.929][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:38:45.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:38:45.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:45.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:38:45.934][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2025-03-21 04:38:45.938][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 04:38:45.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 04:38:45.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:45.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:45.943][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 04:38:45.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 04:38:45.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:45.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:45.984][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 04:38:45.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 04:38:45.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:45.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:45.990][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 04:38:45.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 04:38:45.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:45.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:45.996][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:45.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:45.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.002][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:46.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:46.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.008][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-03-21 04:38:46.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-03-21 04:38:46.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.014][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-03-21 04:38:46.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-03-21 04:38:46.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.020][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-03-21 04:38:46.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-03-21 04:38:46.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.026][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-03-21 04:38:46.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-03-21 04:38:46.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.051][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:38:46.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:38:46.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.075][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:38:46.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:38:46.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.086][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:38:46.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:38:46.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.092][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:38:46.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:38:46.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.098][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:38:46.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:38:46.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.107][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:38:46.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:38:46.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.113][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:38:46.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:38:46.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.119][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:38:46.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:38:46.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.126][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:38:46.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:38:46.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.132][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:38:46.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:38:46.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.138][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:38:46.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:38:46.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.154][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:38:46.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:38:46.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.160][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:38:46.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:38:46.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.166][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:38:46.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:38:46.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.172][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:38:46.174][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:38:46.175][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.177][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.178][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:38:46.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:38:46.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.195][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:38:46.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:38:46.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.201][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:38:46.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:38:46.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.207][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:38:46.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:38:46.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.212][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:38:46.214][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:38:46.215][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.216][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.218][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:38:46.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:38:46.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.242][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 04:38:46.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 04:38:46.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.248][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 04:38:46.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 04:38:46.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.254][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 04:38:46.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 04:38:46.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.260][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 04:38:46.262][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 04:38:46.263][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.264][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.266][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 04:38:46.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 04:38:46.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.283][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 04:38:46.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 04:38:46.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.289][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 04:38:46.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 04:38:46.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.294][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 04:38:46.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 04:38:46.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.300][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 04:38:46.302][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 04:38:46.303][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.305][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.306][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 04:38:46.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 04:38:46.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.323][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:46.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:46.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.330][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:46.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:46.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.336][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:46.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:46.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.342][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:46.343][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:46.345][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.346][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.348][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:46.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:46.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.365][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:38:46.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:38:46.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.371][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:38:46.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:38:46.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.377][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:38:46.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:38:46.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.384][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:38:46.385][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:38:46.387][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.388][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.390][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:38:46.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:38:46.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.407][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 04:38:46.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 04:38:46.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.413][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 04:38:46.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 04:38:46.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.419][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 04:38:46.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 04:38:46.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.425][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 04:38:46.427][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 04:38:46.428][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.430][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.431][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 04:38:46.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 04:38:46.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.448][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-03-21 04:38:46.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 04:38:46.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.455][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-03-21 04:38:46.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 04:38:46.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.461][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-03-21 04:38:46.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 04:38:46.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.467][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-03-21 04:38:46.469][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 04:38:46.471][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.472][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.474][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-03-21 04:38:46.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 04:38:46.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.493][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:38:46.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:38:46.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.500][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:38:46.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:38:46.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.506][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:38:46.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:38:46.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.513][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:38:46.515][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:38:46.516][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.517][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.519][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:38:46.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:38:46.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.535][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 04:38:46.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 04:38:46.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.541][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 04:38:46.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 04:38:46.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.547][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 04:38:46.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 04:38:46.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.552][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 04:38:46.554][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 04:38:46.555][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.556][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.558][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 04:38:46.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 04:38:46.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.574][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 04:38:46.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 04:38:46.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.587][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 04:38:46.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 04:38:46.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.593][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 04:38:46.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 04:38:46.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.598][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 04:38:46.600][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 04:38:46.601][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.602][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.604][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 04:38:46.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 04:38:46.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.620][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 04:38:46.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 04:38:46.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.626][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 04:38:46.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 04:38:46.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.631][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 04:38:46.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 04:38:46.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.636][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 04:38:46.638][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 04:38:46.639][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.640][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.642][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 04:38:46.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 04:38:46.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.658][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:38:46.660][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:38:46.661][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.663][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.669][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 04:38:46.671][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 04:38:46.672][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.673][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.680][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 04:38:46.682][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 04:38:46.683][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.684][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.691][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 04:38:46.692][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 04:38:46.694][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.695][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.702][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 04:38:46.703][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 04:38:46.705][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.706][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.713][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:38:46.714][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:38:46.716][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.717][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.724][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:46.725][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:46.727][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.728][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.735][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:38:46.736][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:38:46.738][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.739][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.745][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-03-21 04:38:46.747][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 04:38:46.748][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.750][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.756][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 04:38:46.758][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 04:38:46.759][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.760][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.767][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 04:38:46.768][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 04:38:46.770][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.771][ef$get] fields variable is a list.
biodb.INFO [2025-03-21 04:38:46.782][biodb::testThat]
biodb.INFO [2025-03-21 04:38:46.783][biodb::testThat] Running test function test.rt.unit (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-03-21 04:38:46.784][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-21 04:38:46.786][biodb::testThat]
biodb.DEBUG[2025-03-21 04:38:46.806][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2025-03-21 04:38:46.815][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-21 04:38:46.821][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15440".
biodb.TRACE[2025-03-21 04:38:46.823][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 04:38:46.825][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml".
biodb.DEBUG[2025-03-21 04:38:46.826][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-21 04:38:46.861][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-21 04:38:46.863][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-21 04:38:46.866][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:38:46.867][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:38:46.869][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:38:46.875][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:38:46.876][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:38:46.878][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:38:46.879][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:38:46.883][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:38:46.884][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:38:46.886][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.887][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.889][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:38:46.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:38:46.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.928][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 04:38:46.929][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 04:38:46.931][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.932][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.934][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 04:38:46.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 04:38:46.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.940][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 04:38:46.941][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 04:38:46.942][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.944][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.946][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 04:38:46.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 04:38:46.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.951][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 04:38:46.953][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 04:38:46.954][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.955][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.957][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 04:38:46.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 04:38:46.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.963][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 04:38:46.964][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 04:38:46.965][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.967][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.969][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 04:38:46.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 04:38:46.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.974][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:38:46.976][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:38:46.977][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.978][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.980][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:38:46.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:38:46.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.986][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 04:38:46.988][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:46.989][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.990][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.992][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 04:38:46.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:46.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:46.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:46.998][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:38:46.999][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:38:47.001][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:47.002][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:47.004][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:38:47.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:38:47.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:47.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:47.010][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 04:38:47.011][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 04:38:47.012][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:47.014][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:47.016][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 04:38:47.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 04:38:47.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:47.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:47.022][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 04:38:47.023][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 04:38:47.024][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:47.026][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:47.027][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 04:38:47.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 04:38:47.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:47.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:47.033][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 04:38:47.035][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 04:38:47.036][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:47.037][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:47.039][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 04:38:47.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 04:38:47.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:47.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:47.045][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:38:47.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:38:47.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:47.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:47.050][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:38:47.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:38:47.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:47.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:47.056][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:38:47.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:38:47.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:47.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:47.062][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:38:47.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:38:47.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:47.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:47.067][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:38:47.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:38:47.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:47.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:47.073][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:38:47.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:38:47.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:47.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:47.078][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:38:47.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:38:47.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:47.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:47.084][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:38:47.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:38:47.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:47.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:47.089][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:38:47.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:38:47.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:47.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:47.095][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:38:47.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:38:47.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:47.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:38:47.100][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2025-03-21 04:38:47.101][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-03-21 04:38:47.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-03-21 04:38:47.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:47.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:47.107][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-03-21 04:38:47.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-03-21 04:38:47.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:47.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:47.112][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-03-21 04:38:47.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-03-21 04:38:47.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:47.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-03-21 04:38:47.127][biodb::testThat]
biodb.INFO [2025-03-21 04:38:47.128][biodb::testThat] Running test function test.searchForEntries (" We can search for an entry by searchable field ").
biodb.INFO [2025-03-21 04:38:47.130][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-21 04:38:47.131][biodb::testThat]
biodb.TRACE[2025-03-21 04:38:47.135][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 04:38:47.137][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 04:38:47.138][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:47.139][ef$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:38:47.141][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2025-03-21 04:38:47.178][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 04:38:47.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 04:38:47.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:47.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:47.184][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 04:38:47.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 04:38:47.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:47.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:47.189][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 04:38:47.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 04:38:47.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:47.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:38:47.199][function(conn, opt)] With value "squalene".
biodb.DEBUG[2025-03-21 04:38:47.205][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-03-21 04:38:47.243][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 04:38:47.267][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2025-03-21 04:38:47.269][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 04:38:47.271][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2025-03-21 04:38:47.305][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[2025-03-21 04:38:47.309][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 04:38:47.311][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-03-21 04:38:47.313][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 04:38:47.315][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-03-21 04:38:47.317][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2025-03-21 04:38:47.334][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:38:47.336][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:38:47.337][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:47.339][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:47.340][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:47.342][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:47.343][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:47.344][ef$get] fields variable is a list.
biodb.INFO [2025-03-21 04:38:47.350][biodb::testThat]
biodb.INFO [2025-03-21 04:38:47.351][biodb::testThat] Running test function test.searchByName (" We can search for an entry by name. ").
biodb.INFO [2025-03-21 04:38:47.353][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-21 04:38:47.354][biodb::testThat]
biodb.TRACE[2025-03-21 04:38:47.389][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 04:38:47.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 04:38:47.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:47.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:47.395][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 04:38:47.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 04:38:47.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:47.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:47.401][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 04:38:47.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 04:38:47.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:47.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:38:47.486][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[2025-03-21 04:38:47.490][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 04:38:47.492][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-03-21 04:38:47.494][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 04:38:47.495][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.INFO [2025-03-21 04:38:47.524][biodb::testThat]
biodb.INFO [2025-03-21 04:38:47.526][biodb::testThat] Running test function testEntryLoading (" We can load an entry from the database. ").
biodb.INFO [2025-03-21 04:38:47.527][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-21 04:38:47.528][biodb::testThat]
biodb.TRACE[2025-03-21 04:38:47.557][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 04:38:47.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 04:38:47.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:47.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:47.562][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 04:38:47.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 04:38:47.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:47.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:47.567][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 04:38:47.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 04:38:47.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:47.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:47.573][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 04:38:47.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 04:38:47.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:47.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:47.578][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:47.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:47.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:47.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:47.583][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:47.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:47.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:47.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:47.589][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-03-21 04:38:47.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-03-21 04:38:47.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:47.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:47.594][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-03-21 04:38:47.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-03-21 04:38:47.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:47.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:47.599][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-03-21 04:38:47.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-03-21 04:38:47.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:47.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:47.605][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-03-21 04:38:47.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-03-21 04:38:47.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:47.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:47.636][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 04:38:47.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 04:38:47.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:47.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:47.641][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 04:38:47.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 04:38:47.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:47.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:47.647][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 04:38:47.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 04:38:47.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:47.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:47.652][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 04:38:47.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 04:38:47.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:47.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:47.657][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:47.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:47.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:47.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:47.663][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:47.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:47.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:47.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:47.668][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-03-21 04:38:47.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-03-21 04:38:47.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:47.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:47.673][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-03-21 04:38:47.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-03-21 04:38:47.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:47.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:47.679][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-03-21 04:38:47.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-03-21 04:38:47.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:47.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:47.685][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-03-21 04:38:47.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-03-21 04:38:47.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:47.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-03-21 04:38:47.699][biodb::testThat]
biodb.INFO [2025-03-21 04:38:47.700][biodb::testThat] Running test function test.entry.page.url (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-03-21 04:38:47.701][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-21 04:38:47.703][biodb::testThat]
biodb.INFO [2025-03-21 04:38:47.714][biodb::testThat]
biodb.INFO [2025-03-21 04:38:47.715][biodb::testThat] Running test function test.entry.image.url (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-03-21 04:38:47.717][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-21 04:38:47.718][biodb::testThat]
biodb.INFO [2025-03-21 04:38:47.729][biodb::testThat]
biodb.INFO [2025-03-21 04:38:47.731][biodb::testThat] Running test function test.entry.page.url.download (" The entry page URL can be downloaded. ").
biodb.INFO [2025-03-21 04:38:47.732][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-21 04:38:47.733][biodb::testThat]
biodb.DEBUG[2025-03-21 04:38:47.739][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
biodb.DEBUG[2025-03-21 04:38:49.002][getUrlContent] Use RCurl for downloading content of URL https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440.
biodb.INFO [2025-03-21 04:38:50.426][biodb::testThat]
biodb.INFO [2025-03-21 04:38:50.429][biodb::testThat] Running test function test.entry.image.url.download (" The entry image URL can be downloaded. ").
biodb.INFO [2025-03-21 04:38:50.431][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-21 04:38:50.432][biodb::testThat]
biodb.DEBUG[2025-03-21 04:38:51.229][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[2025-03-21 04:38:51.983][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 04:38:51.985][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 04:38:51.987][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:51.988][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:51.990][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:38:51.991][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:38:51.993][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:51.994][ef$get] fields variable is a list.
biodb.INFO [2025-03-21 04:38:51.997][biodb::testThat]
biodb.INFO [2025-03-21 04:38:51.999][biodb::testThat] Running test function test.searchCompound (" We can search for a compound ").
biodb.INFO [2025-03-21 04:38:52.001][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-21 04:38:52.002][biodb::testThat]
biodb.TRACE[2025-03-21 04:38:52.019][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 04:38:52.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 04:38:52.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:52.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:52.026][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 04:38:52.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 04:38:52.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:52.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:52.032][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 04:38:52.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 04:38:52.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:52.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:38:52.179][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[2025-03-21 04:38:52.184][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 04:38:52.186][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-03-21 04:38:52.188][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 04:38:52.190][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-03-21 04:38:52.286][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[2025-03-21 04:38:52.291][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 04:38:52.293][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-03-21 04:38:52.294][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 04:38:52.296][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.TRACE[2025-03-21 04:38:52.315][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-21 04:38:52.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-21 04:38:52.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:52.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:52.327][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:52.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:52.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:52.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:52.333][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:52.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:52.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:52.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:52.338][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:52.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:52.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:52.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:52.344][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:52.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:52.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:52.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:52.349][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:52.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:52.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:52.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:38:52.364][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[2025-03-21 04:38:52.369][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 04:38:52.371][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-03-21 04:38:52.372][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 04:38:52.375][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-03-21 04:38:52.378][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:38:52.379][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:38:52.381][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:38:52.387][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:38:52.388][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:38:52.390][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:38:52.391][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:38:52.392][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2025-03-21 04:38:52.470][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-21 04:38:52.473][cch$loadFileContent] Trying to load 1 files from cache: [1]: "192288".
biodb.TRACE[2025-03-21 04:38:52.475][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-03-21 04:38:52.476][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-03-21 04:38:52.478][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-21 04:38:52.479][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-03-21 04:38:52.480][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-03-21 04:38:52.482][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-03-21 04:38:52.485][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:38:52.487][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:38:52.488][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:38:52.494][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:38:52.496][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:38:52.497][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:38:52.498][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:38:52.499][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=192288".
biodb.DEBUG[2025-03-21 04:38:52.503][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-03-21 04:38:52.505][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-03-21 04:38:52.506][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=192288".
biodb.TRACE[2025-03-21 04:38:53.224][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=192288).
biodb.DEBUG[2025-03-21 04:38:53.953][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-03-21 04:38:53.957][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7e76f7a384ab933ed01801c92c3eec77.content"
biodb.TRACE[2025-03-21 04:38:53.980][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7e76f7a384ab933ed01801c92c3eec77.request"
biodb.TRACE[2025-03-21 04:38:53.984][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml"
biodb.DEBUG[2025-03-21 04:38:53.986][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-03-21 04:38:53.988][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-21 04:38:53.990][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-21 04:38:53.992][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:38:53.993][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:38:53.995][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:38:54.002][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:38:54.003][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:38:54.004][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:38:54.006][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:38:54.009][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:38:54.011][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:38:54.012][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:54.014][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:54.016][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:38:54.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:38:54.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:54.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:54.021][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 04:38:54.023][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 04:38:54.024][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:54.025][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:54.027][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 04:38:54.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 04:38:54.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:54.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:54.033][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 04:38:54.035][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 04:38:54.036][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:54.037][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:54.040][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 04:38:54.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 04:38:54.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:54.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:54.046][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 04:38:54.047][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 04:38:54.048][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:54.050][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:54.051][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 04:38:54.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 04:38:54.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:54.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:54.057][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 04:38:54.059][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 04:38:54.060][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:54.062][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:54.064][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 04:38:54.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 04:38:54.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:54.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:54.070][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:38:54.071][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:38:54.073][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:54.074][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:54.076][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 04:38:54.078][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:54.079][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:54.081][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:54.083][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 04:38:54.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:54.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:54.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:54.089][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:38:54.091][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:38:54.092][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:54.093][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:54.095][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:38:54.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:38:54.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:54.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:54.102][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 04:38:54.103][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 04:38:54.105][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:54.106][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:54.108][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 04:38:54.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 04:38:54.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:54.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:54.115][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 04:38:54.116][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 04:38:54.118][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:54.119][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:54.121][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 04:38:54.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 04:38:54.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:54.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:54.142][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 04:38:54.144][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 04:38:54.145][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:54.147][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:54.148][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 04:38:54.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 04:38:54.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:54.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:54.154][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:38:54.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:38:54.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:54.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:54.160][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:38:54.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:38:54.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:54.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:54.165][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:38:54.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:38:54.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:54.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:54.171][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:38:54.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:38:54.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:54.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:54.176][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:38:54.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:38:54.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:54.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:54.181][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:38:54.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:38:54.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:54.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:54.187][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:38:54.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:38:54.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:54.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:54.192][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:38:54.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:38:54.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:54.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:54.197][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:38:54.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:38:54.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:54.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:54.203][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:38:54.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:38:54.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:54.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:38:54.208][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2025-03-21 04:38:54.222][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:54.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:54.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:54.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:54.228][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:54.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:54.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:54.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:54.234][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:54.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:54.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:54.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:38:54.241][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[2025-03-21 04:38:54.245][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 04:38:54.247][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-03-21 04:38:54.249][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 04:38:54.251][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-03-21 04:38:54.274][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:38:54.275][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:38:54.276][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:38:54.283][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:38:54.284][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:38:54.285][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:38:54.287][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.TRACE[2025-03-21 04:38:54.288][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:54.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:54.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:54.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:54.293][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:54.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:54.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:54.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:54.299][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:54.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:54.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:54.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:38:54.304][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:38:54.305][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:38:54.306][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:38:54.313][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:38:54.314][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:38:54.315][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:38:54.317][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[2025-03-21 04:38:54.318][private$loadEntries] Creating entries from ids [1]: "209892".
biodb.DEBUG[2025-03-21 04:38:54.319][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-21 04:38:54.322][cch$loadFileContent] Trying to load 1 files from cache: [1]: "209892".
biodb.TRACE[2025-03-21 04:38:54.323][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-03-21 04:38:54.325][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-03-21 04:38:54.326][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-21 04:38:54.327][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-03-21 04:38:54.329][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-03-21 04:38:54.330][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-03-21 04:38:54.350][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:38:54.352][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:38:54.353][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:38:54.360][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:38:54.361][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:38:54.363][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:38:54.364][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:38:54.365][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=209892".
biodb.DEBUG[2025-03-21 04:38:54.397][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-03-21 04:38:54.398][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-03-21 04:38:54.437][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=209892".
biodb.TRACE[2025-03-21 04:38:55.195][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=209892).
biodb.DEBUG[2025-03-21 04:38:55.944][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-03-21 04:38:55.949][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7a3362365076d47cdf0955cccdd37bcf.content"
biodb.TRACE[2025-03-21 04:38:55.955][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7a3362365076d47cdf0955cccdd37bcf.request"
biodb.TRACE[2025-03-21 04:38:55.959][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/209892.xml"
biodb.DEBUG[2025-03-21 04:38:55.961][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-03-21 04:38:55.963][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-21 04:38:55.965][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-21 04:38:55.969][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:38:55.970][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:38:55.972][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:38:55.985][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:38:55.987][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:38:55.988][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:38:55.990][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:38:55.994][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:38:55.996][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:38:55.998][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:55.999][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:56.002][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:38:56.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:38:56.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:56.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:56.010][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 04:38:56.012][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 04:38:56.014][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:56.016][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:56.019][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 04:38:56.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 04:38:56.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:56.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:56.027][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 04:38:56.029][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 04:38:56.031][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:56.033][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:56.036][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 04:38:56.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 04:38:56.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:56.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:56.043][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 04:38:56.044][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 04:38:56.046][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:56.047][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:56.049][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 04:38:56.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 04:38:56.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:56.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:56.056][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 04:38:56.057][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 04:38:56.059][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:56.061][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:56.063][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 04:38:56.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 04:38:56.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:56.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:56.070][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:38:56.071][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:38:56.073][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:56.074][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:56.076][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 04:38:56.078][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:56.079][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:56.081][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:56.082][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 04:38:56.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:56.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:56.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:56.089][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:38:56.090][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:38:56.092][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:56.093][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:56.095][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:38:56.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:38:56.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:56.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:56.102][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 04:38:56.104][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 04:38:56.105][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:56.107][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:56.109][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 04:38:56.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 04:38:56.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:56.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:56.115][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 04:38:56.117][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 04:38:56.118][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:56.120][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:56.122][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 04:38:56.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 04:38:56.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:56.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:56.128][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 04:38:56.130][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 04:38:56.131][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:56.132][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:56.134][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 04:38:56.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 04:38:56.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:56.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:56.140][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:38:56.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:38:56.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:56.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:56.146][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:38:56.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:38:56.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:56.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:56.153][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:38:56.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:38:56.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:56.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:56.159][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:38:56.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:38:56.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:56.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:56.165][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:38:56.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:38:56.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:56.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:56.171][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:38:56.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:38:56.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:56.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:56.177][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:38:56.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:38:56.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:56.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:56.256][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:38:56.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:38:56.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:56.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:56.261][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:38:56.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:38:56.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:56.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:56.267][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:38:56.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:38:56.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:56.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:38:56.272][self$createEntryFromContent] Accession numbers: 209892.
biodb.TRACE[2025-03-21 04:38:56.274][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:56.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:56.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:56.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:56.279][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:56.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:56.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:56.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:56.285][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:56.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:56.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:56.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:38:56.317][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[2025-03-21 04:38:56.322][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 04:38:56.324][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-03-21 04:38:56.326][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 04:38:56.328][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-03-21 04:38:56.333][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:38:56.334][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:38:56.336][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:38:56.343][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:38:56.344][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:38:56.346][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:38:56.347][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[2025-03-21 04:38:56.349][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:56.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:56.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:56.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:56.355][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:56.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:56.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:56.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:56.361][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:56.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:56.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:56.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:38:56.367][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:38:56.368][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:38:56.369][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:38:56.376][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:38:56.377][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:38:56.379][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:38:56.380][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[2025-03-21 04:38:56.381][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2025-03-21 04:38:56.383][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-21 04:38:56.385][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26747".
biodb.TRACE[2025-03-21 04:38:56.387][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-03-21 04:38:56.389][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-03-21 04:38:56.391][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-21 04:38:56.392][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-03-21 04:38:56.394][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-03-21 04:38:56.395][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-03-21 04:38:56.399][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:38:56.400][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:38:56.402][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:38:56.409][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:38:56.410][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:38:56.412][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:38:56.413][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:38:56.415][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=26747".
biodb.DEBUG[2025-03-21 04:38:56.419][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-03-21 04:38:56.421][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-03-21 04:38:56.422][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=26747".
biodb.TRACE[2025-03-21 04:38:57.145][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=26747).
biodb.DEBUG[2025-03-21 04:38:57.863][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-03-21 04:38:57.866][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/462a35453014388bd90df1c9e4ade520.content"
biodb.TRACE[2025-03-21 04:38:57.871][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/462a35453014388bd90df1c9e4ade520.request"
biodb.TRACE[2025-03-21 04:38:57.874][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml"
biodb.DEBUG[2025-03-21 04:38:57.876][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-03-21 04:38:57.878][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-21 04:38:57.880][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-21 04:38:57.882][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:38:57.884][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:38:57.885][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:38:57.892][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:38:57.893][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:38:57.895][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:38:57.896][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:38:57.899][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:38:57.913][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:38:57.915][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:57.916][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:57.918][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:38:57.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:38:57.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:57.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:57.923][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 04:38:57.925][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 04:38:57.926][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:57.928][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:57.929][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 04:38:57.931][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 04:38:57.932][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:57.934][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:57.936][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 04:38:57.937][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 04:38:57.938][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:57.940][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:57.942][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 04:38:57.943][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 04:38:57.944][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:57.946][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:57.948][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:38:57.949][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:38:57.951][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:57.952][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:57.954][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 04:38:57.955][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:57.957][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:57.958][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:57.960][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:38:57.962][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:38:57.963][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:57.964][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:57.966][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 04:38:57.968][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 04:38:57.969][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:57.971][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:57.973][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 04:38:57.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 04:38:57.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:57.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:57.979][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 04:38:57.980][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 04:38:57.982][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:57.983][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:57.985][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 04:38:57.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 04:38:57.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:57.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:57.991][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 04:38:57.992][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 04:38:57.993][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:57.995][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:57.997][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:38:57.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:38:58.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:58.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:58.003][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:38:58.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:38:58.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:58.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:58.009][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:38:58.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:38:58.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:58.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:58.015][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:38:58.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:38:58.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:58.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:58.021][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:38:58.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:38:58.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:58.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:58.027][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:38:58.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:38:58.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:58.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:58.033][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:38:58.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:38:58.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:58.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:58.040][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:38:58.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:38:58.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:58.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:58.046][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:38:58.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:38:58.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:58.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:58.051][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:38:58.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:38:58.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:58.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:38:58.057][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2025-03-21 04:38:58.059][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:58.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:58.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:58.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:58.064][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:58.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:58.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:58.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:58.071][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:58.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:58.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:58.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:58.077][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:58.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:58.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:58.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:38:58.083][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:58.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:38:58.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:38:58.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:38:58.090][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:38:58.091][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:38:58.092][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:38:58.099][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:38:58.100][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:38:58.102][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:38:58.103][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[2025-03-21 04:38:58.105][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2025-03-21 04:38:58.106][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-21 04:38:58.109][cch$loadFileContent] Trying to load 1 files from cache: [1]: "59285".
biodb.TRACE[2025-03-21 04:38:58.110][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-03-21 04:38:58.112][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-03-21 04:38:58.114][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-21 04:38:58.115][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-03-21 04:38:58.117][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-03-21 04:38:58.118][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-03-21 04:38:58.122][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:38:58.123][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:38:58.125][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:38:58.132][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:38:58.133][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:38:58.134][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:38:58.136][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:38:58.137][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=59285".
biodb.DEBUG[2025-03-21 04:38:58.141][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-03-21 04:38:58.143][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-03-21 04:38:58.145][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=59285".
biodb.TRACE[2025-03-21 04:38:59.306][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=59285).
biodb.DEBUG[2025-03-21 04:39:00.056][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-03-21 04:39:00.059][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a390fa120be311b7c431851d8d66d5ac.content"
biodb.TRACE[2025-03-21 04:39:00.063][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a390fa120be311b7c431851d8d66d5ac.request"
biodb.TRACE[2025-03-21 04:39:00.067][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml"
biodb.DEBUG[2025-03-21 04:39:00.069][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-03-21 04:39:00.071][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-21 04:39:00.073][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-21 04:39:00.075][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:00.076][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:00.078][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:00.097][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:00.098][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:00.100][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:00.101][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:00.105][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:00.107][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:00.108][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:00.109][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:00.111][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:00.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:00.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:00.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:00.118][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 04:39:00.119][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 04:39:00.120][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:00.122][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:00.124][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 04:39:00.125][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 04:39:00.127][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:00.128][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:00.130][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 04:39:00.132][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 04:39:00.133][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:00.134][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:00.136][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 04:39:00.138][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 04:39:00.139][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:00.141][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:00.143][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:39:00.144][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:39:00.146][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:00.147][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:00.149][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 04:39:00.151][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:00.152][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:00.153][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:00.155][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:00.157][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:00.158][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:00.160][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:00.161][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 04:39:00.163][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 04:39:00.164][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:00.166][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:00.168][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 04:39:00.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 04:39:00.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:00.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:00.174][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 04:39:00.175][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 04:39:00.177][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:00.178][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:00.180][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 04:39:00.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 04:39:00.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:00.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:00.192][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 04:39:00.194][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 04:39:00.196][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:00.197][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:00.200][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:00.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:00.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:00.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:00.206][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:00.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:00.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:00.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:00.212][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:00.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:00.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:00.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:00.219][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:00.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:00.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:00.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:00.225][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:00.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:00.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:00.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:00.231][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:00.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:00.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:00.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:00.238][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:00.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:00.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:00.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:00.244][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:00.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:00.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:00.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:00.251][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:00.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:00.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:00.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:00.257][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:00.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:00.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:00.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:00.263][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2025-03-21 04:39:00.265][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:00.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:00.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:00.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:00.271][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:00.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:00.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:00.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:00.277][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:00.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:00.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:00.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:00.284][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:00.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:00.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:00.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:00.290][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:00.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:00.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:00.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:00.297][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:00.298][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:00.300][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:00.308][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:00.310][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:00.311][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:00.313][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:00.315][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2025-03-21 04:39:00.316][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-21 04:39:00.319][cch$loadFileContent] Trying to load 1 files from cache: [1]: "75174".
biodb.TRACE[2025-03-21 04:39:00.321][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-03-21 04:39:00.323][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-03-21 04:39:00.325][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-21 04:39:00.327][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-03-21 04:39:00.329][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-03-21 04:39:00.331][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-03-21 04:39:00.336][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:00.337][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:00.339][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:00.346][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:00.348][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:00.349][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:00.351][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[2025-03-21 04:39:00.352][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75174".
biodb.DEBUG[2025-03-21 04:39:00.357][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-03-21 04:39:00.359][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-03-21 04:39:00.361][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75174".
biodb.TRACE[2025-03-21 04:39:01.083][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=75174).
biodb.DEBUG[2025-03-21 04:39:01.805][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-03-21 04:39:01.809][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/379ec57940c7734782bc4c07c7e15a9b.content"
biodb.TRACE[2025-03-21 04:39:01.814][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/379ec57940c7734782bc4c07c7e15a9b.request"
biodb.TRACE[2025-03-21 04:39:01.818][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml"
biodb.DEBUG[2025-03-21 04:39:01.820][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-03-21 04:39:01.822][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-21 04:39:01.824][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-21 04:39:01.844][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:01.846][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:01.847][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:01.854][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:01.856][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:01.857][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:01.859][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:01.862][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:01.864][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:01.866][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:01.867][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:01.869][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:01.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:01.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:01.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:01.876][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 04:39:01.878][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 04:39:01.879][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:01.881][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:01.882][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 04:39:01.884][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 04:39:01.886][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:01.887][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:01.889][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 04:39:01.891][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 04:39:01.892][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:01.894][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:01.896][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 04:39:01.897][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 04:39:01.899][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:01.900][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:01.902][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:39:01.904][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:39:01.905][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:01.907][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:01.909][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 04:39:01.910][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:01.912][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:01.913][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:01.915][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:01.917][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:01.918][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:01.920][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:01.922][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 04:39:01.923][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 04:39:01.925][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:01.926][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:01.929][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 04:39:01.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 04:39:01.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:01.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:01.935][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 04:39:01.937][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 04:39:01.938][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:01.940][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:01.941][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 04:39:01.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 04:39:01.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:01.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:01.947][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 04:39:01.949][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 04:39:01.950][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:01.951][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:01.953][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:01.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:01.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:01.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:01.959][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:01.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:01.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:01.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:01.966][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:01.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:01.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:01.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:01.972][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:01.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:01.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:01.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:01.978][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:01.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:01.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:01.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:01.984][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:01.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:01.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:01.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:01.990][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:01.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:01.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:01.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:01.996][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:01.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:01.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:02.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:02.002][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:02.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:02.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:02.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:02.008][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:02.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:02.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:02.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:02.013][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2025-03-21 04:39:02.015][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:02.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:02.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:02.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:02.020][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:02.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:02.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:02.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:02.026][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:02.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:02.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:02.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:02.031][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:02.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:02.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:02.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:02.037][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:02.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:02.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:02.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:02.042][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:02.043][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:02.045][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:02.051][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:02.052][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:02.054][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:02.055][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[2025-03-21 04:39:02.056][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2025-03-21 04:39:02.058][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-21 04:39:02.060][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15441".
biodb.TRACE[2025-03-21 04:39:02.062][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-03-21 04:39:02.063][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-03-21 04:39:02.065][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-21 04:39:02.066][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-03-21 04:39:02.067][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-03-21 04:39:02.069][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-03-21 04:39:02.073][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:02.074][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:02.075][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:02.082][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:02.084][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:02.085][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:02.086][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:02.088][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15441".
biodb.DEBUG[2025-03-21 04:39:02.092][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-03-21 04:39:02.093][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-03-21 04:39:02.095][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15441".
biodb.TRACE[2025-03-21 04:39:02.842][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15441).
biodb.DEBUG[2025-03-21 04:39:03.619][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-03-21 04:39:03.622][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a6d4f93841bd82da498852b3a0a5692d.content"
biodb.TRACE[2025-03-21 04:39:03.636][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a6d4f93841bd82da498852b3a0a5692d.request"
biodb.TRACE[2025-03-21 04:39:03.645][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml"
biodb.DEBUG[2025-03-21 04:39:03.647][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-03-21 04:39:03.649][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-21 04:39:03.651][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-21 04:39:03.654][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:03.656][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:03.657][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:03.664][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:03.670][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:03.671][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:03.673][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:03.676][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:03.678][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:03.679][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:03.681][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:03.683][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:03.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:03.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:03.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:03.689][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 04:39:03.691][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 04:39:03.693][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:03.694][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:03.696][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 04:39:03.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 04:39:03.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:03.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:03.703][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 04:39:03.704][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 04:39:03.706][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:03.707][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:03.710][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 04:39:03.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 04:39:03.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:03.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:03.717][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 04:39:03.719][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 04:39:03.720][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:03.722][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:03.724][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 04:39:03.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 04:39:03.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:03.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:03.730][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 04:39:03.732][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 04:39:03.733][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:03.734][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:03.736][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 04:39:03.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 04:39:03.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:03.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:03.742][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:39:03.744][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:39:03.745][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:03.746][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:03.748][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:39:03.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:39:03.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:03.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:03.754][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 04:39:03.756][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:03.757][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:03.758][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:03.760][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 04:39:03.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:03.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:03.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:03.766][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:03.768][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:03.769][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:03.770][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:03.772][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:03.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:03.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:03.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:03.778][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 04:39:03.780][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 04:39:03.781][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:03.782][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:03.785][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 04:39:03.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 04:39:03.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:03.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:03.791][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 04:39:03.792][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 04:39:03.794][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:03.795][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:03.797][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 04:39:03.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 04:39:03.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:03.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:03.803][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 04:39:03.805][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 04:39:03.806][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:03.808][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:03.810][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 04:39:03.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 04:39:03.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:03.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:03.816][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:03.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:03.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:03.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:03.822][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:03.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:03.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:03.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:03.828][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:03.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:03.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:03.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:03.834][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:03.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:03.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:03.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:03.840][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:03.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:03.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:03.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:03.847][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:03.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:03.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:03.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:03.853][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:03.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:03.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:03.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:03.859][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:03.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:03.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:03.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:03.864][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:03.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:03.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:03.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:03.870][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:03.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:03.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:03.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:03.876][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2025-03-21 04:39:03.877][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:03.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:03.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:03.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:03.883][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:03.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:03.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:03.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:03.889][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:03.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:03.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:03.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:03.895][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:03.896][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:03.897][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:03.904][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:03.905][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:03.906][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:03.908][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[2025-03-21 04:39:03.909][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2025-03-21 04:39:03.911][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-21 04:39:03.913][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15442".
biodb.TRACE[2025-03-21 04:39:03.923][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-03-21 04:39:03.925][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-03-21 04:39:03.927][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-21 04:39:03.928][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-03-21 04:39:03.930][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-03-21 04:39:03.931][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-03-21 04:39:03.935][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:03.937][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:03.938][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:03.945][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:03.947][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:03.948][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:03.950][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:03.951][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15442".
biodb.DEBUG[2025-03-21 04:39:03.955][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-03-21 04:39:03.957][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-03-21 04:39:03.959][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15442".
biodb.TRACE[2025-03-21 04:39:04.679][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=15442).
biodb.DEBUG[2025-03-21 04:39:05.439][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-03-21 04:39:05.442][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4c2c678eeeeb53d29ca6f3663ebee297.content"
biodb.TRACE[2025-03-21 04:39:05.447][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4c2c678eeeeb53d29ca6f3663ebee297.request"
biodb.TRACE[2025-03-21 04:39:05.451][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml"
biodb.DEBUG[2025-03-21 04:39:05.453][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-03-21 04:39:05.455][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-21 04:39:05.457][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-21 04:39:05.459][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:05.460][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:05.462][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:05.468][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:05.470][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:05.471][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:05.472][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:05.475][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:05.477][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:05.479][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:05.480][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:05.482][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:05.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:05.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:05.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:05.487][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 04:39:05.489][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 04:39:05.490][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:05.492][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:05.493][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 04:39:05.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 04:39:05.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:05.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:05.499][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 04:39:05.501][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 04:39:05.502][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:05.503][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:05.505][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 04:39:05.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 04:39:05.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:05.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:05.511][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 04:39:05.513][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 04:39:05.514][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:05.515][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:05.517][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 04:39:05.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 04:39:05.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:05.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:05.523][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 04:39:05.525][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 04:39:05.526][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:05.527][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:05.529][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 04:39:05.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 04:39:05.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:05.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:05.535][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:39:05.537][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:39:05.538][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:05.540][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:05.542][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:39:05.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:39:05.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:05.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:05.548][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 04:39:05.550][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:05.551][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:05.553][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:05.555][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 04:39:05.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:05.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:05.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:05.568][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:05.570][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:05.572][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:05.573][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:05.576][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:05.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:05.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:05.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:05.583][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 04:39:05.585][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 04:39:05.586][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:05.588][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:05.591][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 04:39:05.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 04:39:05.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:05.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:05.598][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 04:39:05.599][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 04:39:05.601][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:05.603][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:05.605][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 04:39:05.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 04:39:05.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:05.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:05.612][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 04:39:05.614][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 04:39:05.616][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:05.617][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:05.619][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 04:39:05.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 04:39:05.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:05.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:05.626][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:05.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:05.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:05.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:05.633][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:05.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:05.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:05.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:05.640][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:05.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:05.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:05.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:05.646][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:05.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:05.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:05.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:05.653][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:05.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:05.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:05.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:05.661][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:05.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:05.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:05.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:05.668][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:05.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:05.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:05.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:05.675][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:05.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:05.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:05.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:05.682][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:05.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:05.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:05.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:05.710][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:05.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:05.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:05.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:05.717][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2025-03-21 04:39:05.719][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:05.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:05.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:05.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:05.726][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:05.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:05.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:05.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:05.733][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:05.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:05.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:05.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:05.739][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:05.741][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:05.743][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:05.751][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:05.752][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:05.754][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:05.756][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.DEBUG[2025-03-21 04:39:05.758][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2025-03-21 04:39:05.759][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-21 04:39:05.762][cch$loadFileContent] Trying to load 1 files from cache: [1]: "57310".
biodb.TRACE[2025-03-21 04:39:05.764][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-03-21 04:39:05.766][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-03-21 04:39:05.768][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-21 04:39:05.770][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-03-21 04:39:05.772][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-03-21 04:39:05.773][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-03-21 04:39:05.778][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:05.780][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:05.782][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:05.790][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:05.791][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:05.793][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:05.794][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.DEBUG[2025-03-21 04:39:05.796][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=57310".
biodb.DEBUG[2025-03-21 04:39:05.801][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-03-21 04:39:05.802][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-03-21 04:39:05.805][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=57310".
biodb.TRACE[2025-03-21 04:39:06.548][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=57310).
biodb.DEBUG[2025-03-21 04:39:07.281][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-03-21 04:39:07.285][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e616043f98d9256021d0f5715e02d37b.content"
biodb.TRACE[2025-03-21 04:39:07.291][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/e616043f98d9256021d0f5715e02d37b.request"
biodb.TRACE[2025-03-21 04:39:07.296][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml"
biodb.DEBUG[2025-03-21 04:39:07.299][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-03-21 04:39:07.301][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-21 04:39:07.303][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-21 04:39:07.306][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:07.308][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:07.310][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:07.318][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:07.320][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:07.321][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:07.323][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:07.327][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:07.328][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:07.330][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:07.332][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:07.334][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:07.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:07.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:07.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:07.341][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 04:39:07.343][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 04:39:07.345][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:07.346][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:07.348][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 04:39:07.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 04:39:07.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:07.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:07.356][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 04:39:07.357][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 04:39:07.359][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:07.361][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:07.363][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 04:39:07.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 04:39:07.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:07.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:07.370][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 04:39:07.371][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 04:39:07.373][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:07.375][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:07.377][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 04:39:07.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 04:39:07.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:07.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:07.384][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 04:39:07.385][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 04:39:07.387][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:07.388][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:07.390][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 04:39:07.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 04:39:07.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:07.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:07.397][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:39:07.399][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:39:07.400][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:07.402][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:07.404][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 04:39:07.405][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:07.407][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:07.408][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:07.410][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 04:39:07.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:07.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:07.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:07.417][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:07.419][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:07.421][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:07.422][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:07.424][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:07.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:07.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:07.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:07.430][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 04:39:07.432][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 04:39:07.433][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:07.435][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:07.437][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 04:39:07.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 04:39:07.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:07.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:07.443][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 04:39:07.445][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 04:39:07.446][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:07.448][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:07.450][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 04:39:07.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 04:39:07.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:07.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:07.456][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 04:39:07.458][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 04:39:07.459][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:07.460][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:07.462][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 04:39:07.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 04:39:07.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:07.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:07.469][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:07.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:07.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:07.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:07.475][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:07.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:07.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:07.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:07.494][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:07.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:07.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:07.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:07.501][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:07.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:07.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:07.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:07.507][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:07.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:07.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:07.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:07.514][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:07.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:07.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:07.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:07.520][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:07.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:07.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:07.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:07.527][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:07.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:07.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:07.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:07.534][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:07.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:07.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:07.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:07.541][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:07.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:07.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:07.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:07.548][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2025-03-21 04:39:07.550][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:07.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:07.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:07.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:07.557][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:07.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:07.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:07.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:07.564][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:07.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:07.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:07.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:07.571][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:07.572][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:07.574][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:07.581][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:07.583][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:07.584][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:07.586][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:07.588][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2025-03-21 04:39:07.589][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-21 04:39:07.592][cch$loadFileContent] Trying to load 1 files from cache: [1]: "66216".
biodb.TRACE[2025-03-21 04:39:07.594][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-03-21 04:39:07.596][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-03-21 04:39:07.598][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-21 04:39:07.600][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-03-21 04:39:07.602][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-03-21 04:39:07.604][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-03-21 04:39:07.608][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:07.609][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:07.611][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:07.618][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:07.619][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:07.621][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:07.622][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:07.624][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66216".
biodb.DEBUG[2025-03-21 04:39:07.628][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-03-21 04:39:07.629][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-03-21 04:39:07.631][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66216".
biodb.TRACE[2025-03-21 04:39:08.378][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=66216).
biodb.DEBUG[2025-03-21 04:39:09.136][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-03-21 04:39:09.139][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a59039263bdeb010b063b31b1dcdd109.content"
biodb.TRACE[2025-03-21 04:39:09.144][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/a59039263bdeb010b063b31b1dcdd109.request"
biodb.TRACE[2025-03-21 04:39:09.148][private$doSaveContentToFile] Saving to cache [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml"
biodb.DEBUG[2025-03-21 04:39:09.150][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-03-21 04:39:09.152][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-21 04:39:09.153][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-21 04:39:09.156][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:09.157][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:09.158][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:09.165][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:09.166][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:09.168][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:09.169][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:09.173][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:09.175][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:09.176][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.177][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.179][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:09.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:09.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.185][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 04:39:09.187][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 04:39:09.188][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.190][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.191][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 04:39:09.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 04:39:09.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.198][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 04:39:09.199][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 04:39:09.201][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.202][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.204][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 04:39:09.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 04:39:09.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.210][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 04:39:09.212][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 04:39:09.213][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.214][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.216][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 04:39:09.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 04:39:09.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.222][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 04:39:09.224][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 04:39:09.225][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.226][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.228][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 04:39:09.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 04:39:09.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.234][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:39:09.236][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:39:09.238][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.239][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.241][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 04:39:09.242][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:09.244][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.245][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.247][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 04:39:09.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:09.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.253][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:09.255][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:09.256][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.257][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.259][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:09.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:09.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.265][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 04:39:09.267][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 04:39:09.269][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.270][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.272][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 04:39:09.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 04:39:09.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.293][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 04:39:09.295][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 04:39:09.296][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.298][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.300][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 04:39:09.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 04:39:09.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.306][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 04:39:09.308][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 04:39:09.310][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.311][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.313][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 04:39:09.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 04:39:09.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.319][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:09.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:09.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.325][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:09.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:09.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.332][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:09.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:09.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.338][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:09.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:09.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.345][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:09.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:09.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.351][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:09.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:09.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.357][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:09.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:09.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.363][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:09.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:09.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.370][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:09.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:09.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.375][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:09.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:09.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:09.381][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2025-03-21 04:39:09.382][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:09.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:09.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.388][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:09.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:09.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.394][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:09.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:09.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:09.399][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:09.401][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:09.402][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:09.408][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:09.410][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:09.411][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:09.412][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:09.414][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2025-03-21 04:39:09.415][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-21 04:39:09.417][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70860".
biodb.TRACE[2025-03-21 04:39:09.419][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 04:39:09.422][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml".
biodb.DEBUG[2025-03-21 04:39:09.423][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-21 04:39:09.425][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-21 04:39:09.426][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-21 04:39:09.429][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:09.430][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:09.431][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:09.438][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:09.439][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:09.441][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:09.442][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:09.445][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:09.446][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:09.448][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.449][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.451][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:09.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:09.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.456][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 04:39:09.458][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 04:39:09.459][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.461][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.463][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 04:39:09.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 04:39:09.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.469][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 04:39:09.470][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 04:39:09.471][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.473][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.475][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 04:39:09.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 04:39:09.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.480][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 04:39:09.482][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 04:39:09.483][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.484][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.486][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 04:39:09.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 04:39:09.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.492][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 04:39:09.494][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 04:39:09.495][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.496][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.498][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 04:39:09.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 04:39:09.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.504][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:39:09.505][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:39:09.507][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.508][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.510][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 04:39:09.511][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:09.512][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.514][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.515][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 04:39:09.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:09.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.521][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:09.523][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:09.524][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.525][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.527][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:09.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:09.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.539][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 04:39:09.541][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 04:39:09.543][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.544][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.547][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 04:39:09.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 04:39:09.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.553][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 04:39:09.555][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 04:39:09.574][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.575][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.577][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 04:39:09.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 04:39:09.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.583][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 04:39:09.585][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 04:39:09.586][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.588][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.590][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 04:39:09.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 04:39:09.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.596][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:09.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:09.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.603][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:09.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:09.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.609][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:09.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:09.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.616][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:09.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:09.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.622][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:09.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:09.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.628][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:09.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:09.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.634][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:09.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:09.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.641][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:09.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:09.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.647][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:09.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:09.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.653][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:09.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:09.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:09.659][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2025-03-21 04:39:09.660][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:09.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:09.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.667][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:09.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:09.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.675][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:09.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:09.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:09.682][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:09.684][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:09.686][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:09.694][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:09.696][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:09.697][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:09.698][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[2025-03-21 04:39:09.700][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2025-03-21 04:39:09.702][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-21 04:39:09.704][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70861".
biodb.TRACE[2025-03-21 04:39:09.707][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 04:39:09.710][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml".
biodb.DEBUG[2025-03-21 04:39:09.712][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-21 04:39:09.714][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-21 04:39:09.716][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-21 04:39:09.718][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:09.720][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:09.721][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:09.728][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:09.730][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:09.731][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:09.732][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:09.736][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:09.737][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:09.739][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.740][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.742][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:09.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:09.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.748][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 04:39:09.750][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 04:39:09.751][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.752][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.754][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 04:39:09.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 04:39:09.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.760][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 04:39:09.762][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 04:39:09.763][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.765][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.767][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 04:39:09.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 04:39:09.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.773][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 04:39:09.774][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 04:39:09.776][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.777][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.779][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 04:39:09.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 04:39:09.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.785][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 04:39:09.787][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 04:39:09.788][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.789][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.791][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 04:39:09.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 04:39:09.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.798][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:39:09.799][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:39:09.801][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.802][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.804][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 04:39:09.806][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:09.808][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.809][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.811][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 04:39:09.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:09.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.819][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:09.820][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:09.822][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.824][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.826][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:09.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:09.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.832][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 04:39:09.834][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 04:39:09.835][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.836][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.839][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 04:39:09.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 04:39:09.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.845][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 04:39:09.846][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 04:39:09.848][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.849][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.851][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 04:39:09.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 04:39:09.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.910][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 04:39:09.912][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 04:39:09.913][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.915][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.917][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 04:39:09.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 04:39:09.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.924][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:09.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:09.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.930][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:09.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:09.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.936][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:09.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:09.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.942][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:09.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:09.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.949][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:09.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:09.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.956][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:09.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:09.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.962][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:09.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:09.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.968][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:09.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:09.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.974][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:09.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:09.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.980][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:09.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:09.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:09.986][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2025-03-21 04:39:09.988][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:09.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:09.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.994][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:09.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:09.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:09.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:09.999][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:10.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:10.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:10.006][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:10.007][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:10.008][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:10.015][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:10.017][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:10.018][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:10.020][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:10.021][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2025-03-21 04:39:10.023][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-21 04:39:10.025][cch$loadFileContent] Trying to load 1 files from cache: [1]: "78662".
biodb.TRACE[2025-03-21 04:39:10.027][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 04:39:10.030][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml".
biodb.DEBUG[2025-03-21 04:39:10.032][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-21 04:39:10.034][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-21 04:39:10.035][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-21 04:39:10.038][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:10.039][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:10.040][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:10.047][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:10.049][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:10.050][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:10.051][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:10.054][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:10.056][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:10.057][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.059][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.060][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:10.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:10.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.066][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 04:39:10.068][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 04:39:10.069][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.071][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.072][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 04:39:10.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 04:39:10.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.078][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 04:39:10.080][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 04:39:10.081][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.082][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.084][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 04:39:10.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 04:39:10.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.091][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 04:39:10.092][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 04:39:10.094][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.095][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.097][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 04:39:10.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 04:39:10.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.103][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 04:39:10.104][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 04:39:10.106][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.107][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.109][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 04:39:10.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 04:39:10.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.115][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:39:10.117][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:39:10.118][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.120][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.122][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 04:39:10.124][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:10.125][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.127][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.128][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 04:39:10.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:10.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.135][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:10.136][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:10.138][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.139][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.141][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:10.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:10.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.146][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 04:39:10.148][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 04:39:10.149][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.151][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.153][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 04:39:10.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 04:39:10.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.159][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 04:39:10.160][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 04:39:10.161][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.163][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.164][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 04:39:10.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 04:39:10.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.171][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 04:39:10.172][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 04:39:10.174][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.175][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.177][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 04:39:10.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 04:39:10.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.192][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:10.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:10.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.199][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:10.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:10.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.205][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:10.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:10.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.212][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:10.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:10.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.219][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:10.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:10.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.226][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:10.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:10.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.232][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:10.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:10.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.238][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:10.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:10.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.243][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:10.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:10.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.249][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:10.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:10.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:10.254][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2025-03-21 04:39:10.256][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:10.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:10.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.261][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:10.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:10.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.267][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:10.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:10.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:10.272][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:10.273][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:10.275][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:10.281][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:10.283][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:10.284][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:10.285][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[2025-03-21 04:39:10.287][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2025-03-21 04:39:10.288][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-21 04:39:10.290][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85084".
biodb.TRACE[2025-03-21 04:39:10.292][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 04:39:10.295][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml".
biodb.DEBUG[2025-03-21 04:39:10.296][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-21 04:39:10.298][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-21 04:39:10.299][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-21 04:39:10.302][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:10.303][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:10.304][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:10.311][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:10.312][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:10.313][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:10.315][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:10.318][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:10.319][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:10.321][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.322][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.324][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:10.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:10.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.329][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 04:39:10.331][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 04:39:10.332][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.333][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.335][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 04:39:10.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 04:39:10.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.340][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 04:39:10.342][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 04:39:10.343][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.344][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.346][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 04:39:10.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 04:39:10.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.352][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 04:39:10.353][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 04:39:10.354][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.356][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.357][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 04:39:10.359][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 04:39:10.360][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.361][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.363][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:39:10.365][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:39:10.366][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.367][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.369][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 04:39:10.370][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:10.372][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.373][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.375][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 04:39:10.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:10.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.380][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:10.382][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:10.383][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.385][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.386][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:10.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:10.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.392][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 04:39:10.393][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 04:39:10.395][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.396][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.398][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 04:39:10.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 04:39:10.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.404][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 04:39:10.405][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 04:39:10.406][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.408][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.410][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 04:39:10.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 04:39:10.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.415][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 04:39:10.417][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 04:39:10.418][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.419][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.421][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:10.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:10.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.427][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:10.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:10.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.433][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:10.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:10.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.438][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:10.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:10.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.444][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:10.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:10.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.458][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:10.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:10.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.464][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:10.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:10.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.470][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:10.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:10.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.476][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:10.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:10.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.481][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:10.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:10.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:10.487][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2025-03-21 04:39:10.489][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:10.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:10.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.495][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:10.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:10.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.501][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:10.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:10.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:10.507][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:10.508][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:10.510][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:10.516][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:10.518][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:10.519][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:10.520][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:10.522][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2025-03-21 04:39:10.523][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-21 04:39:10.525][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85086".
biodb.TRACE[2025-03-21 04:39:10.527][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 04:39:10.530][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml".
biodb.DEBUG[2025-03-21 04:39:10.531][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-21 04:39:10.533][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-21 04:39:10.535][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-21 04:39:10.537][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:10.538][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:10.539][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:10.546][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:10.547][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:10.549][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:10.550][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:10.553][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:10.555][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:10.556][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.558][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.559][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:10.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:10.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.565][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 04:39:10.567][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 04:39:10.568][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.570][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.572][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 04:39:10.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 04:39:10.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.578][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 04:39:10.579][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 04:39:10.581][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.582][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.584][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 04:39:10.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 04:39:10.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.590][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 04:39:10.592][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 04:39:10.593][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.595][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.596][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 04:39:10.598][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 04:39:10.599][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.601][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.603][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:39:10.604][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:39:10.606][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.607][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.609][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 04:39:10.611][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:10.612][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.614][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.616][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 04:39:10.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:10.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.622][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:10.624][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:10.625][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.627][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.628][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:10.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:10.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.634][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 04:39:10.636][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 04:39:10.637][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.639][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.641][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 04:39:10.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 04:39:10.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.647][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 04:39:10.649][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 04:39:10.650][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.651][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.653][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 04:39:10.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 04:39:10.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.660][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 04:39:10.662][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 04:39:10.663][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.664][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.667][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:10.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:10.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.673][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:10.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:10.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.678][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:10.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:10.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.684][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:10.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:10.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.690][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:10.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:10.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.695][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:10.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:10.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.701][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:10.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:10.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.707][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:10.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:10.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.713][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:10.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:10.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.727][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:10.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:10.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:10.733][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2025-03-21 04:39:10.734][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:10.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:10.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.740][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:10.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:10.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.746][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:10.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:10.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:10.752][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:10.754][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:10.755][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:10.762][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:10.763][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:10.765][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:10.766][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[2025-03-21 04:39:10.768][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2025-03-21 04:39:10.769][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-21 04:39:10.771][cch$loadFileContent] Trying to load 1 files from cache: [1]: "88123".
biodb.TRACE[2025-03-21 04:39:10.773][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 04:39:10.776][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml".
biodb.DEBUG[2025-03-21 04:39:10.778][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-21 04:39:10.780][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-21 04:39:10.781][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-21 04:39:10.784][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:10.785][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:10.786][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:10.793][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:10.794][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:10.796][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:10.797][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:10.800][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:10.802][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:10.803][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.805][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.806][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:10.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:10.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.812][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 04:39:10.814][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 04:39:10.815][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.816][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.818][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 04:39:10.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 04:39:10.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.824][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 04:39:10.825][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 04:39:10.827][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.828][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.830][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 04:39:10.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 04:39:10.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.836][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 04:39:10.838][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 04:39:10.839][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.840][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.842][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 04:39:10.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 04:39:10.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.848][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 04:39:10.849][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 04:39:10.851][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.852][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.854][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 04:39:10.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 04:39:10.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.860][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:39:10.862][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:39:10.863][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.864][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.866][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 04:39:10.868][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:10.869][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.870][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.872][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 04:39:10.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:10.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.878][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:10.880][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:10.881][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.883][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.885][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:10.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:10.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.891][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 04:39:10.893][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 04:39:10.894][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.895][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.898][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 04:39:10.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 04:39:10.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.904][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 04:39:10.905][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 04:39:10.907][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.908][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.910][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 04:39:10.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 04:39:10.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.916][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 04:39:10.918][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 04:39:10.920][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.921][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.923][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 04:39:10.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 04:39:10.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.930][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:10.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:10.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.936][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:10.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:10.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.942][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:10.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:10.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.947][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:10.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:10.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.953][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:10.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:10.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.959][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:10.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:10.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.965][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:10.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:10.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.972][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:10.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:10.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.978][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:10.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:10.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:10.983][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:10.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:10.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:10.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:10.990][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2025-03-21 04:39:10.992][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:11.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:11.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.007][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:11.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:11.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.014][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:11.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:11.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:11.020][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:11.021][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:11.022][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:11.029][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:11.030][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:11.032][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:11.033][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:11.035][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2025-03-21 04:39:11.036][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-21 04:39:11.038][cch$loadFileContent] Trying to load 1 files from cache: [1]: "134117".
biodb.TRACE[2025-03-21 04:39:11.040][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 04:39:11.043][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml".
biodb.DEBUG[2025-03-21 04:39:11.045][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-21 04:39:11.046][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-21 04:39:11.048][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-21 04:39:11.050][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:11.052][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:11.053][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:11.060][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:11.061][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:11.062][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:11.064][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:11.067][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:11.068][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:11.070][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.071][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.073][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:11.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:11.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.079][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 04:39:11.080][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 04:39:11.081][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.083][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.085][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 04:39:11.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 04:39:11.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.090][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 04:39:11.092][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 04:39:11.093][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.094][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.096][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 04:39:11.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 04:39:11.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.102][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 04:39:11.104][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 04:39:11.105][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.106][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.108][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 04:39:11.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 04:39:11.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.114][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 04:39:11.116][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 04:39:11.117][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.118][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.120][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 04:39:11.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 04:39:11.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.126][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:39:11.128][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:39:11.129][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.130][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.132][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 04:39:11.134][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:11.135][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.136][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.138][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 04:39:11.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:11.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.144][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:11.146][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:11.147][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.148][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.150][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:11.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:11.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.156][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 04:39:11.157][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 04:39:11.159][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.160][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.162][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 04:39:11.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 04:39:11.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.168][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 04:39:11.169][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 04:39:11.171][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.172][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.174][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 04:39:11.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 04:39:11.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.180][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 04:39:11.181][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 04:39:11.182][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.184][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.186][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 04:39:11.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 04:39:11.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.191][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:11.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:11.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.197][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:11.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:11.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.202][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:11.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:11.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.208][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:11.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:11.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.213][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:11.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:11.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.219][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:11.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:11.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.224][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:11.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:11.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.230][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:11.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:11.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.236][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:11.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:11.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.241][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:11.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:11.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:11.247][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2025-03-21 04:39:11.248][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:11.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:11.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.254][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:11.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:11.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.267][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:11.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:11.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:11.273][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:11.274][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:11.276][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:11.282][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:11.284][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:11.285][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:11.286][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[2025-03-21 04:39:11.288][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2025-03-21 04:39:11.289][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-21 04:39:11.291][cch$loadFileContent] Trying to load 1 files from cache: [1]: "138307".
biodb.TRACE[2025-03-21 04:39:11.293][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 04:39:11.296][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml".
biodb.DEBUG[2025-03-21 04:39:11.297][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-21 04:39:11.299][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-21 04:39:11.301][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-21 04:39:11.303][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:11.304][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:11.305][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:11.312][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:11.314][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:11.315][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:11.317][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:11.320][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:11.321][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:11.323][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.324][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.326][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:11.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:11.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.331][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 04:39:11.332][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 04:39:11.334][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.335][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.337][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 04:39:11.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 04:39:11.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.342][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 04:39:11.343][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 04:39:11.345][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.346][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.348][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 04:39:11.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 04:39:11.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.353][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 04:39:11.354][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 04:39:11.356][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.357][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.359][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 04:39:11.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 04:39:11.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.364][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 04:39:11.365][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 04:39:11.367][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.368][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.370][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 04:39:11.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 04:39:11.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.376][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:39:11.377][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:39:11.378][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.380][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.381][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 04:39:11.383][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:11.384][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.385][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.387][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 04:39:11.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:11.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.393][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:11.394][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:11.395][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.397][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.398][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:11.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:11.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.404][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 04:39:11.405][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 04:39:11.407][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.408][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.410][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 04:39:11.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 04:39:11.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.415][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 04:39:11.417][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 04:39:11.418][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.419][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.421][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 04:39:11.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 04:39:11.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.427][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 04:39:11.429][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 04:39:11.430][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.431][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.433][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 04:39:11.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 04:39:11.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.439][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:11.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:11.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.445][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:11.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:11.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.451][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:11.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:11.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.457][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:11.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:11.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.463][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:11.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:11.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.469][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:11.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:11.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.475][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:11.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:11.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.480][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:11.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:11.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.486][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:11.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:11.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.491][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:11.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:11.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:11.497][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2025-03-21 04:39:11.498][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:11.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:11.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.504][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:11.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:11.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.509][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:11.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:11.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:11.514][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:11.515][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:11.517][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:11.532][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:11.534][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:11.535][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:11.536][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:11.538][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2025-03-21 04:39:11.539][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-21 04:39:11.542][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176803".
biodb.TRACE[2025-03-21 04:39:11.544][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 04:39:11.546][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml".
biodb.DEBUG[2025-03-21 04:39:11.548][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-21 04:39:11.550][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-21 04:39:11.552][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-21 04:39:11.554][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:11.555][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:11.557][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:11.564][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:11.565][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:11.566][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:11.568][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:11.571][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:11.573][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:11.574][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.576][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.578][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:11.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:11.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.584][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 04:39:11.586][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 04:39:11.587][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.589][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.591][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 04:39:11.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 04:39:11.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.597][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 04:39:11.598][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 04:39:11.600][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.601][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.603][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 04:39:11.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 04:39:11.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.610][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 04:39:11.611][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 04:39:11.613][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.615][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.616][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 04:39:11.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 04:39:11.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.622][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 04:39:11.624][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 04:39:11.625][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.626][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.628][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 04:39:11.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 04:39:11.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.634][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:39:11.635][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:39:11.637][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.638][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.640][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 04:39:11.641][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:11.643][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.644][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.646][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 04:39:11.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:11.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.651][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:11.653][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:11.654][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.656][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.657][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:11.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:11.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.663][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 04:39:11.664][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 04:39:11.666][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.667][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.669][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 04:39:11.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 04:39:11.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.674][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 04:39:11.676][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 04:39:11.677][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.678][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.680][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 04:39:11.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 04:39:11.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.693][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 04:39:11.695][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 04:39:11.696][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.698][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.700][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 04:39:11.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 04:39:11.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.706][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:11.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:11.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.712][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:11.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:11.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.718][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:11.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:11.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.725][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:11.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:11.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.731][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:11.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:11.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.737][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:11.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:11.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.743][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:11.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:11.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.750][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:11.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:11.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.756][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:11.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:11.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.762][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:11.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:11.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:11.768][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2025-03-21 04:39:11.770][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:11.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:11.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.776][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:11.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:11.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.783][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:11.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:11.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:11.789][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:11.790][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:11.791][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:11.800][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:11.801][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:11.803][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:11.819][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:11.822][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2025-03-21 04:39:11.824][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-21 04:39:11.826][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176962".
biodb.TRACE[2025-03-21 04:39:11.828][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 04:39:11.831][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml".
biodb.DEBUG[2025-03-21 04:39:11.833][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-21 04:39:11.835][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-21 04:39:11.837][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-21 04:39:11.840][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:11.841][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:11.843][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:11.851][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:11.852][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:11.854][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:11.855][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:11.859][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:11.861][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:11.862][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.864][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.865][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:11.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:11.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.871][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 04:39:11.873][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 04:39:11.874][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.876][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.877][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 04:39:11.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 04:39:11.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.883][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 04:39:11.885][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 04:39:11.886][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.888][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.889][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 04:39:11.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 04:39:11.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.895][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 04:39:11.897][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 04:39:11.898][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.900][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.901][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 04:39:11.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 04:39:11.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.907][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 04:39:11.909][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 04:39:11.910][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.912][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.914][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 04:39:11.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 04:39:11.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.920][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:39:11.922][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:39:11.923][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.925][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.926][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 04:39:11.928][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:11.930][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.931][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.933][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 04:39:11.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:11.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.939][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:11.940][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:11.942][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.943][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.945][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:11.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:11.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.951][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 04:39:11.953][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 04:39:11.954][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.956][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.958][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 04:39:11.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 04:39:11.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.963][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 04:39:11.965][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 04:39:11.966][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.968][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.970][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 04:39:11.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 04:39:11.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.975][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 04:39:11.977][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 04:39:11.978][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.980][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.982][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 04:39:11.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 04:39:11.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.987][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:11.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:11.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.993][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:11.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:11.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:11.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:11.998][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:12.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:12.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.004][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:12.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:12.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.009][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:12.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:12.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.015][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:12.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:12.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.020][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:12.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:12.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.026][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:12.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:12.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.031][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:12.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:12.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.036][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:12.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:12.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:12.042][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2025-03-21 04:39:12.043][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.049][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.054][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:12.059][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:12.060][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:12.062][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:12.068][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:12.069][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:12.071][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:12.072][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[2025-03-21 04:39:12.073][private$loadEntries] Creating entries from ids [1]: "198655".
biodb.DEBUG[2025-03-21 04:39:12.075][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-21 04:39:12.077][cch$loadFileContent] Trying to load 1 files from cache: [1]: "198655".
biodb.TRACE[2025-03-21 04:39:12.078][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 04:39:12.088][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/198655.xml".
biodb.DEBUG[2025-03-21 04:39:12.091][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-21 04:39:12.093][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-21 04:39:12.094][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-21 04:39:12.097][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:12.098][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:12.099][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:12.106][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:12.107][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:12.108][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:12.109][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:12.112][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:12.114][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:12.115][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.117][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.118][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:12.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:12.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.124][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 04:39:12.125][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 04:39:12.126][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.128][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.129][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 04:39:12.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 04:39:12.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.135][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 04:39:12.137][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 04:39:12.139][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.140][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.142][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 04:39:12.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 04:39:12.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.148][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 04:39:12.149][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 04:39:12.150][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.152][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.153][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 04:39:12.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 04:39:12.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.159][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 04:39:12.160][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 04:39:12.162][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.163][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.165][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 04:39:12.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 04:39:12.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.171][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:39:12.172][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:39:12.174][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.175][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.177][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 04:39:12.179][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.180][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.182][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.183][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 04:39:12.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.189][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:12.191][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:12.192][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.194][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.195][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:12.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:12.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.201][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 04:39:12.203][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 04:39:12.204][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.205][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.207][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 04:39:12.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 04:39:12.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.213][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 04:39:12.215][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 04:39:12.216][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.217][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.219][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 04:39:12.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 04:39:12.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.225][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 04:39:12.226][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 04:39:12.228][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.229][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.231][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 04:39:12.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 04:39:12.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.237][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:12.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:12.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.242][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:12.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:12.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.248][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:12.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:12.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.254][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:12.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:12.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.260][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:12.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:12.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.266][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:12.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:12.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.272][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:12.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:12.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.279][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:12.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:12.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.285][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:12.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:12.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.291][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:12.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:12.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:12.297][self$createEntryFromContent] Accession numbers: 198655.
biodb.TRACE[2025-03-21 04:39:12.298][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.305][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.311][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:12.318][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:12.319][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:12.321][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:12.327][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:12.329][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:12.330][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:12.331][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:12.333][private$loadEntries] Creating entries from ids [1]: "215045".
biodb.DEBUG[2025-03-21 04:39:12.334][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-21 04:39:12.337][cch$loadFileContent] Trying to load 1 files from cache: [1]: "215045".
biodb.TRACE[2025-03-21 04:39:12.338][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 04:39:12.341][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/215045.xml".
biodb.DEBUG[2025-03-21 04:39:12.343][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-21 04:39:12.345][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-21 04:39:12.346][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-21 04:39:12.349][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:12.358][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:12.359][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:12.366][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:12.367][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:12.369][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:12.370][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:12.373][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:12.375][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:12.376][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.377][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.379][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:12.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:12.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.385][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 04:39:12.386][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 04:39:12.388][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.389][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.391][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 04:39:12.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 04:39:12.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.397][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 04:39:12.398][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 04:39:12.400][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.401][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.403][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 04:39:12.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 04:39:12.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.409][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 04:39:12.410][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 04:39:12.412][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.413][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.415][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 04:39:12.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 04:39:12.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.421][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 04:39:12.422][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 04:39:12.424][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.425][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.427][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 04:39:12.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 04:39:12.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.433][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:39:12.434][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:39:12.436][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.437][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.439][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 04:39:12.440][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.442][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.443][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.445][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 04:39:12.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.451][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:12.452][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:12.453][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.455][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.456][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:12.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:12.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.462][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 04:39:12.464][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 04:39:12.465][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.467][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.469][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 04:39:12.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 04:39:12.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.475][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 04:39:12.476][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 04:39:12.478][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.479][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.481][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 04:39:12.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 04:39:12.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.488][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 04:39:12.489][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 04:39:12.491][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.492][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.494][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 04:39:12.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 04:39:12.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.500][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:12.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:12.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.505][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:12.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:12.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.512][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:12.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:12.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.518][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:12.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:12.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.524][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:12.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:12.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.529][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:12.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:12.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.535][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:12.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:12.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.541][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:12.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:12.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.546][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:12.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:12.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.553][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:12.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:12.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:12.559][self$createEntryFromContent] Accession numbers: 215045.
biodb.TRACE[2025-03-21 04:39:12.561][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.566][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.572][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:12.602][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[2025-03-21 04:39:12.607][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 04:39:12.609][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-03-21 04:39:12.611][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 04:39:12.613][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-03-21 04:39:12.617][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:12.626][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:12.628][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:12.635][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:12.636][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:12.638][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:12.639][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:12.641][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.648][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.654][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:12.659][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:12.660][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:12.662][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:12.668][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:12.670][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:12.671][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:12.672][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:12.673][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.679][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.684][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.690][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.695][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:12.701][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:12.702][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:12.703][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:12.710][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:12.711][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:12.712][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:12.714][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:12.715][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.721][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.727][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.733][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.738][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:12.744][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:12.746][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:12.747][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:12.754][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:12.755][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:12.757][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:12.758][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:12.760][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.766][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.773][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.779][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.785][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:12.791][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:12.793][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:12.794][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:12.801][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:12.802][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:12.804][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:12.805][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[2025-03-21 04:39:12.807][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.813][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.819][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:12.826][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:12.827][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:12.828][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:12.835][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:12.836][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:12.837][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:12.839][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.TRACE[2025-03-21 04:39:12.840][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.846][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.851][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:12.856][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:12.858][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:12.859][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:12.866][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:12.867][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:12.868][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:12.870][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:12.872][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.878][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.884][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:12.898][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:12.899][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:12.901][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:12.907][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:12.909][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:12.910][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:12.912][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:12.913][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.919][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.925][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:12.931][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:12.932][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:12.934][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:12.940][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:12.942][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:12.943][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:12.944][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:12.946][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.952][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.958][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:12.963][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:12.965][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:12.966][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:12.973][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:12.974][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:12.976][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:12.977][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:12.979][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.985][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:12.992][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:12.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:12.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:12.998][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:12.999][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:13.001][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:13.008][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:13.009][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:13.011][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:13.012][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:13.014][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:13.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:13.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.021][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:13.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:13.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.027][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:13.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:13.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:13.032][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:13.034][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:13.035][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:13.041][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:13.043][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:13.044][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:13.045][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:13.047][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:13.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:13.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.053][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:13.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:13.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.059][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:13.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:13.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:13.064][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:13.066][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:13.067][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:13.074][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:13.075][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:13.076][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:13.078][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:13.079][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:13.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:13.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.086][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:13.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:13.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.092][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:13.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:13.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:13.098][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:13.099][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:13.101][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:13.108][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:13.109][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:13.111][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:13.112][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:13.114][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:13.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:13.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.120][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:13.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:13.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.125][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:13.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:13.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:13.131][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:13.132][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:13.133][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:13.140][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:13.141][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:13.143][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:13.144][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:13.146][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:13.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:13.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.152][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:13.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:13.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.157][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:13.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:13.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:13.171][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:13.172][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:13.173][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:13.180][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:13.181][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:13.183][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:13.184][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:13.186][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:13.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:13.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.191][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:13.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:13.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.197][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:13.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:13.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:13.202][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:13.204][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:13.205][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:13.211][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:13.213][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:13.214][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:13.215][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:13.217][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:13.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:13.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.223][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:13.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:13.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.228][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:13.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:13.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:13.233][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:13.235][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:13.236][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:13.242][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:13.244][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:13.245][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:13.246][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:13.248][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:13.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:13.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.253][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:13.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:13.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.259][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:13.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:13.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:13.264][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:13.266][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:13.267][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:13.273][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:13.275][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:13.276][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:13.277][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:13.279][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:13.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:13.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.285][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:13.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:13.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.291][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:13.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:13.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:13.297][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:13.298][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:13.300][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:13.306][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:13.308][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:13.309][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:13.310][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.TRACE[2025-03-21 04:39:13.312][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:13.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:13.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.317][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:13.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:13.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.323][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:13.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:13.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.349][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:13.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:13.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.355][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:13.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:13.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.360][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:13.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:13.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.366][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:13.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:13.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.372][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:13.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:13.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:13.425][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-03-21 04:39:13.430][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 04:39:13.432][cch$loadFileContent] Trying to load 1 files from cache: [1]: "c5171beada848a87ef2ffa10427d9be3".
biodb.TRACE[2025-03-21 04:39:13.434][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 04:39:13.438][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c5171beada848a87ef2ffa10427d9be3.content".
biodb.DEBUG[2025-03-21 04:39:13.447][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[2025-03-21 04:39:13.452][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 04:39:13.454][cch$loadFileContent] Trying to load 1 files from cache: [1]: "750e63ff76a843f016511fa71c89113e".
biodb.TRACE[2025-03-21 04:39:13.456][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 04:39:13.459][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/750e63ff76a843f016511fa71c89113e.content".
biodb.DEBUG[2025-03-21 04:39:13.463][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:13.465][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:13.466][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:13.473][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:13.475][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:13.476][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:13.478][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:13.479][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2025-03-21 04:39:13.481][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-21 04:39:13.484][cch$loadFileContent] Trying to load 1 files from cache: [1]: "4648".
biodb.TRACE[2025-03-21 04:39:13.486][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 04:39:13.489][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml".
biodb.DEBUG[2025-03-21 04:39:13.490][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-21 04:39:13.492][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-21 04:39:13.494][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-21 04:39:13.497][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:13.498][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:13.499][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:13.506][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:13.508][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:13.509][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:13.510][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:13.514][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:13.515][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:13.517][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.518][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.520][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:13.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:13.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.525][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 04:39:13.527][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 04:39:13.528][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.530][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.532][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 04:39:13.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 04:39:13.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.538][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 04:39:13.539][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 04:39:13.540][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.542][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.544][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 04:39:13.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 04:39:13.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.550][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 04:39:13.551][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 04:39:13.553][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.554][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.556][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 04:39:13.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 04:39:13.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.562][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 04:39:13.563][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 04:39:13.564][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.566][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.568][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 04:39:13.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 04:39:13.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.573][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:39:13.575][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:39:13.576][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.578][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.580][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:39:13.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:39:13.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.586][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 04:39:13.587][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:13.589][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.590][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.592][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 04:39:13.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:13.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.598][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:13.600][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:13.601][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.603][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.604][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:13.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:13.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.611][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 04:39:13.612][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 04:39:13.614][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.615][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.617][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 04:39:13.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 04:39:13.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.624][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 04:39:13.626][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 04:39:13.627][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.629][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.631][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 04:39:13.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 04:39:13.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.637][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 04:39:13.638][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 04:39:13.640][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.641][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.643][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 04:39:13.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 04:39:13.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.649][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:13.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:13.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.654][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:13.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:13.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.660][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:13.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:13.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.666][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:13.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:13.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.671][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:13.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:13.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.677][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:13.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:13.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.683][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:13.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:13.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.689][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:13.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:13.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.695][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:13.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:13.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.711][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:13.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:13.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:13.717][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2025-03-21 04:39:13.718][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:13.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:13.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.725][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:13.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:13.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.730][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:13.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:13.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:13.737][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:13.738][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:13.739][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:13.746][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:13.748][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:13.749][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:13.750][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.TRACE[2025-03-21 04:39:13.752][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:13.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:13.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.758][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:13.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:13.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.764][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:13.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:13.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:13.770][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:13.771][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:13.773][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:13.780][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:13.781][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:13.782][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:13.784][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.DEBUG[2025-03-21 04:39:13.785][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2025-03-21 04:39:13.787][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-21 04:39:13.789][cch$loadFileContent] Trying to load 1 files from cache: [1]: "62447".
biodb.TRACE[2025-03-21 04:39:13.791][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 04:39:13.794][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml".
biodb.DEBUG[2025-03-21 04:39:13.795][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-21 04:39:13.797][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-21 04:39:13.799][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-21 04:39:13.801][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:13.802][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:13.804][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:13.811][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:13.812][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:13.814][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:13.815][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:13.818][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:13.820][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:13.821][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.822][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.824][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:13.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:13.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.830][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 04:39:13.832][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 04:39:13.833][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.835][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.837][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 04:39:13.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 04:39:13.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.843][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 04:39:13.844][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 04:39:13.846][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.847][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.849][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 04:39:13.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 04:39:13.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.855][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 04:39:13.857][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 04:39:13.858][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.859][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.861][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 04:39:13.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 04:39:13.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.867][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 04:39:13.868][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 04:39:13.870][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.871][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.873][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 04:39:13.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 04:39:13.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.879][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:39:13.880][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:39:13.882][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.883][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.885][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 04:39:13.886][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:13.888][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.889][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.891][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 04:39:13.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:13.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.897][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:13.898][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:13.900][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.901][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.903][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:13.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:13.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.909][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 04:39:13.911][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 04:39:13.912][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.913][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.915][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 04:39:13.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 04:39:13.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.921][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 04:39:13.923][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 04:39:13.924][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.926][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.927][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 04:39:13.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 04:39:13.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.933][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 04:39:13.935][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 04:39:13.936][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.938][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.939][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 04:39:13.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 04:39:13.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.945][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:13.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:13.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.951][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:13.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:13.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.957][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:13.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:13.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.963][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:13.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:13.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.977][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:13.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:13.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.984][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:13.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:13.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.991][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:13.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:13.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:13.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:13.997][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:13.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:14.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:14.003][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:14.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:14.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:14.009][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:14.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:14.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:14.016][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2025-03-21 04:39:14.018][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:14.024][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:14.030][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:14.060][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[2025-03-21 04:39:14.065][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 04:39:14.067][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-03-21 04:39:14.069][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 04:39:14.071][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-03-21 04:39:14.075][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:14.076][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:14.077][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:14.084][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:14.086][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:14.087][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:14.088][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:14.090][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:14.096][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:14.101][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:14.107][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:14.108][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:14.110][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:14.116][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:14.118][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:14.119][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:14.120][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:14.122][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:14.127][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:14.133][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:14.138][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:14.144][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:14.150][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:14.151][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:14.152][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:14.159][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:14.160][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:14.161][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:14.163][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:14.164][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:14.170][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:14.175][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:14.181][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:14.187][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:14.192][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:14.194][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:14.195][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:14.201][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:14.203][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:14.204][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:14.205][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.TRACE[2025-03-21 04:39:14.207][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:14.213][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:14.218][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:14.224][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:14.230][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:14.244][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:14.246][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:14.247][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:14.254][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:14.255][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:14.257][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:14.258][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:14.260][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:14.265][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:14.271][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:14.277][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:14.278][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:14.279][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:14.286][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:14.288][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:14.289][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:14.290][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:14.292][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:14.298][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:14.303][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:14.309][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:14.310][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:14.312][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:14.318][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:14.320][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:14.321][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:14.322][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:14.324][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:14.329][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:14.335][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:14.341][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:14.342][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:14.343][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:14.350][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:14.351][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:14.352][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:14.354][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[2025-03-21 04:39:14.355][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:14.361][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:14.366][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:14.372][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:14.373][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:14.375][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:14.381][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:14.383][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:14.384][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:14.385][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:14.387][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:14.392][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:14.398][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:14.403][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:14.405][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:14.406][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:14.413][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:14.414][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:14.415][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:14.417][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:14.418][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:14.424][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:14.429][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:14.435][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:14.436][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:14.438][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:14.444][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:14.445][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:14.447][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:14.448][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:14.450][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:14.455][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:14.461][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:14.467][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:14.468][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:14.469][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:14.476][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:14.477][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:14.478][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:14.480][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:14.481][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:14.487][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:14.493][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:14.507][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:14.509][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:14.510][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:14.516][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:14.518][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:14.519][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:14.520][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:14.522][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:14.528][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:14.533][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:14.539][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:14.540][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:14.541][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:14.548][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:14.550][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:14.551][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:14.552][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:14.554][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:14.559][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:14.565][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:14.570][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:14.571][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:14.573][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:14.579][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:14.581][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:14.582][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:14.583][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[2025-03-21 04:39:14.585][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:14.591][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:14.596][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:14.602][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:14.603][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:14.604][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:14.611][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:14.612][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:14.614][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:14.615][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[2025-03-21 04:39:14.616][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:14.622][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:14.628][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:14.633][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:14.635][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:14.636][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:14.643][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:14.644][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:14.646][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:14.648][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:14.649][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:14.656][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:14.663][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:14.669][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:14.671][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:14.672][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:14.680][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:14.681][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:14.683][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:14.684][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:14.686][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:14.693][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:14.700][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:14.706][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:14.707][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:14.709][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:14.716][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:14.717][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:14.719][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:14.720][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[2025-03-21 04:39:14.722][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:14.728][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:14.734][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:14.740][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:14.741][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:14.743][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:14.750][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:14.751][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:14.753][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:14.754][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:14.756][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:14.762][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:14.769][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:14.809][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[2025-03-21 04:39:14.814][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 04:39:14.816][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-03-21 04:39:14.818][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 04:39:14.820][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-03-21 04:39:14.824][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:14.825][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:14.827][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:14.834][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:14.835][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:14.836][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:14.838][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:14.840][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:14.846][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:14.852][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:14.858][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:14.859][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:14.860][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:14.867][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:14.868][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:14.870][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:14.871][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:14.873][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:14.879][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:14.885][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:14.891][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:14.896][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:14.902][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:14.904][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:14.905][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:14.912][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:14.913][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:14.914][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:14.916][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:14.917][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:14.923][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:14.929][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:14.936][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:14.942][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:14.948][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:14.949][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:14.951][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:14.958][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:14.959][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:14.960][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:14.962][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:14.963][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:14.970][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:14.976][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:14.982][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:14.988][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:14.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:14.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:14.994][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:14.995][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:14.997][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:15.004][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:15.005][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:15.007][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:15.008][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:15.010][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:15.017][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:15.023][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:15.029][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:15.030][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:15.031][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:15.038][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:15.039][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:15.041][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:15.042][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:15.044][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:15.059][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:15.065][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:15.071][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:15.072][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:15.073][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:15.080][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:15.082][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:15.083][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:15.084][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:15.086][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:15.092][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:15.098][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:15.103][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:15.105][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:15.106][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:15.112][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:15.114][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:15.115][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:15.116][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:15.118][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:15.124][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:15.130][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:15.136][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:15.137][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:15.138][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:15.145][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:15.146][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:15.148][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:15.149][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:15.151][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:15.157][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:15.163][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:15.169][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:15.170][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:15.171][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:15.178][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:15.180][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:15.181][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:15.182][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:15.184][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:15.190][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:15.196][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:15.202][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:15.203][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:15.205][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:15.211][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:15.213][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:15.214][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:15.216][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[2025-03-21 04:39:15.218][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:15.224][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:15.231][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:15.237][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:15.238][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:15.239][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:15.246][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:15.247][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:15.249][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:15.250][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[2025-03-21 04:39:15.252][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:15.257][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:15.263][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:15.268][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:15.269][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:15.271][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:15.277][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:15.278][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:15.280][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:15.281][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.TRACE[2025-03-21 04:39:15.282][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:15.288][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:15.293][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:15.299][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:15.300][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:15.301][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:15.308][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:15.310][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:15.311][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:15.320][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:15.322][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:15.328][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:15.334][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:15.339][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:15.341][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:15.342][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:15.348][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:15.350][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:15.351][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:15.352][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:15.354][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:15.359][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:15.365][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:15.371][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:15.372][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:15.373][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:15.380][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:15.381][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:15.383][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:15.384][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:15.385][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:15.391][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:15.397][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:15.402][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:15.404][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:15.405][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:15.412][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:15.413][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:15.414][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:15.415][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:15.417][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:15.423][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:15.428][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:15.434][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:15.435][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:15.436][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:15.443][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:15.444][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:15.446][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:15.447][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:15.448][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:15.454][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:15.460][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:15.465][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:15.466][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:15.467][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:15.474][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:15.475][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:15.477][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:15.478][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:15.480][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:15.485][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:15.490][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:15.496][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:15.497][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:15.498][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:15.505][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:15.506][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:15.507][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:15.509][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:15.510][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:15.516][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:15.521][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:15.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:15.547][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-03-21 04:39:15.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-03-21 04:39:15.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-03-21 04:39:15.563][biodb::testThat]
biodb.INFO [2025-03-21 04:39:15.565][biodb::testThat] Running test function test_annotateMzValues_input_vector (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2025-03-21 04:39:15.566][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-21 04:39:15.568][biodb::testThat]
biodb.TRACE[2025-03-21 04:39:15.584][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-21 04:39:15.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-21 04:39:15.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:15.591][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:15.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:15.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:15.597][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:15.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:15.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:15.603][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:15.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:15.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:15.610][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:15.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:15.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:15.620][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:15.622][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:15.623][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:15.630][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:15.631][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:15.633][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:15.634][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:15.638][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[2025-03-21 04:39:15.643][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 04:39:15.645][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-03-21 04:39:15.647][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 04:39:15.649][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-03-21 04:39:15.653][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:15.655][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:15.656][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:15.663][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:15.665][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:15.666][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:15.667][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.TRACE[2025-03-21 04:39:15.669][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:15.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:15.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:15.674][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:15.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:15.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:15.680][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:15.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:15.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:15.686][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[2025-03-21 04:39:15.690][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 04:39:15.693][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-03-21 04:39:15.694][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 04:39:15.696][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-03-21 04:39:15.700][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:15.701][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:15.702][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:15.708][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:15.710][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:15.711][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:15.712][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:15.714][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:15.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:15.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:15.719][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:15.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:15.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:15.724][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:15.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:15.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:15.730][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:15.731][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:15.732][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:15.738][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:15.740][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:15.741][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:15.742][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:15.744][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:15.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:15.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:15.749][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:15.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:15.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:15.755][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:15.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:15.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:15.760][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-03-21 04:39:15.762][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:15.763][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:15.765][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:15.771][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:15.772][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:15.774][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:15.775][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:15.776][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:15.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:15.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:15.782][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:15.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:15.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:15.787][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 04:39:15.788][private$selectFields]
biodb.TRACE[2025-03-21 04:39:15.789][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-21 04:39:15.791][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-21 04:39:15.792][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 04:39:15.793][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:15.795][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:15.796][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.797][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:15.799][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:15.800][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:15.801][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.803][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:15.804][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 04:39:15.805][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 04:39:15.806][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:15.808][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:15.809][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.810][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:15.812][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-21 04:39:15.813][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:15.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:15.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:15.819][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:15.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:15.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:15.824][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:15.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:15.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:15.866][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-03-21 04:39:15.868][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:15.870][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:15.871][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:15.879][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:15.881][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:15.882][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:15.884][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:15.886][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:15.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:15.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:15.892][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:15.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:15.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:15.899][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 04:39:15.900][private$selectFields]
biodb.TRACE[2025-03-21 04:39:15.902][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-21 04:39:15.903][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-21 04:39:15.904][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 04:39:15.906][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:15.907][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:15.909][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.910][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:15.912][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:15.913][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:15.915][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.916][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:15.918][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 04:39:15.919][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 04:39:15.921][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:15.922][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:15.924][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.925][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:15.926][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-21 04:39:15.928][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:15.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:15.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:15.934][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:15.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:15.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:15.940][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:15.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:15.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:15.946][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-03-21 04:39:15.948][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:15.949][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:15.951][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:15.958][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:15.959][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:15.961][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:15.962][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:15.964][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:15.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:15.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:15.970][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:15.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:15.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:15.976][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 04:39:15.977][private$selectFields]
biodb.TRACE[2025-03-21 04:39:15.979][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-21 04:39:15.980][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-21 04:39:15.982][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 04:39:15.983][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:15.985][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:15.986][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.988][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:15.989][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:15.991][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:15.992][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:15.994][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:15.995][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 04:39:15.996][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 04:39:15.998][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:15.999][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:16.001][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:16.002][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:16.004][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-21 04:39:16.005][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:16.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:16.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:16.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:16.012][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:16.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:16.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:16.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:16.018][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:16.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:16.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:16.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:16.025][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-03-21 04:39:16.027][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-03-21 04:39:16.028][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-03-21 04:39:16.043][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:16.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:16.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:16.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:16.050][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:16.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:16.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:16.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:16.056][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:16.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:16.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:16.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:16.061][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:16.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:16.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:16.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:16.164][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:16.165][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:16.166][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:16.173][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:16.174][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:16.176][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:16.177][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:16.181][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[2025-03-21 04:39:16.186][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 04:39:16.188][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2025-03-21 04:39:16.190][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 04:39:16.193][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2025-03-21 04:39:16.197][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[2025-03-21 04:39:16.202][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 04:39:16.204][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2025-03-21 04:39:16.206][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 04:39:16.209][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2025-03-21 04:39:16.213][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:16.215][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:16.216][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:16.223][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:16.224][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:16.226][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:16.227][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:16.229][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:16.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:16.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:16.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:16.235][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:16.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:16.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:16.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:16.241][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:16.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:16.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:16.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:16.246][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:16.248][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:16.249][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:16.256][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:16.257][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:16.259][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:16.260][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.TRACE[2025-03-21 04:39:16.262][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:16.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:16.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:16.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:16.267][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:16.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:16.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:16.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:16.273][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:16.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:16.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:16.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:16.280][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:16.281][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:16.282][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:16.289][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:16.291][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:16.292][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:16.294][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:16.295][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:16.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:16.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:16.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:16.302][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:16.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:16.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:16.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:16.308][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:16.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:16.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:16.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:16.350][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-03-21 04:39:16.399][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:16.400][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:16.401][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:16.408][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:16.409][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:16.411][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:16.412][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:16.414][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:16.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:16.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:16.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:16.419][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:16.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:16.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:16.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:16.425][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 04:39:16.426][private$selectFields]
biodb.TRACE[2025-03-21 04:39:16.428][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-21 04:39:16.429][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-21 04:39:16.430][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 04:39:16.432][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:16.433][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:16.435][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:16.436][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:16.437][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:16.439][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:16.440][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:16.441][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:16.443][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 04:39:16.444][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 04:39:16.446][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:16.447][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:16.448][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:16.450][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:16.451][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-21 04:39:16.453][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:16.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:16.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:16.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:16.458][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:16.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:16.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:16.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:16.464][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:16.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:16.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:16.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:16.470][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-03-21 04:39:16.471][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:16.473][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:16.474][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:16.480][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:16.482][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:16.483][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:16.484][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:16.503][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:16.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:16.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:16.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:16.509][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:16.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:16.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:16.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:16.545][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 04:39:16.546][private$selectFields]
biodb.TRACE[2025-03-21 04:39:16.548][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-21 04:39:16.549][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-21 04:39:16.550][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 04:39:16.551][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:16.553][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:16.554][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:16.555][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:16.557][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:16.558][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:16.559][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:16.561][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:16.562][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 04:39:16.577][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 04:39:16.579][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:16.580][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:16.582][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:16.583][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:16.584][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-21 04:39:16.585][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:16.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:16.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:16.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:16.591][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:16.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:16.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:16.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:16.596][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:16.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:16.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:16.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:16.602][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-03-21 04:39:16.603][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:16.604][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:16.613][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:16.621][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:16.622][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:16.623][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:16.624][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:16.626][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:16.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:16.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:16.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:16.631][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:16.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:16.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:16.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:16.637][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 04:39:16.638][private$selectFields]
biodb.TRACE[2025-03-21 04:39:16.639][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-21 04:39:16.641][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-21 04:39:16.642][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 04:39:16.643][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:16.645][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:16.646][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:16.647][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:16.649][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:16.650][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:16.652][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:16.653][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:16.654][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 04:39:16.656][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 04:39:16.657][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:16.658][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:16.660][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:16.661][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:16.662][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-21 04:39:16.664][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:16.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:16.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:16.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:16.669][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:16.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:16.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:16.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:16.674][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:16.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:16.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:16.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:16.680][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-03-21 04:39:16.682][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-03-21 04:39:16.683][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-03-21 04:39:16.695][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-03-21 04:39:16.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-03-21 04:39:16.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:16.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-03-21 04:39:16.705][biodb::testThat]
biodb.INFO [2025-03-21 04:39:16.706][biodb::testThat] Running test function test_annotateMzValues_ppm_tol (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2025-03-21 04:39:16.707][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-21 04:39:16.709][biodb::testThat]
biodb.TRACE[2025-03-21 04:39:16.713][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-21 04:39:16.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-21 04:39:16.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:16.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:16.719][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:16.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:16.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:16.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:16.724][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:16.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:16.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:16.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:16.730][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:16.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:16.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:16.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:16.735][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:16.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:16.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:16.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:16.744][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:16.745][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:16.746][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:16.752][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:16.754][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:16.755][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:16.756][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.DEBUG[2025-03-21 04:39:16.760][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[2025-03-21 04:39:16.764][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 04:39:16.766][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-03-21 04:39:16.768][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 04:39:16.770][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-03-21 04:39:16.773][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:16.774][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:16.775][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:16.782][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:16.783][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:16.784][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:16.786][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:16.787][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:16.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:16.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:16.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:16.793][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:16.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:16.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:16.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:16.798][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:16.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:16.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:16.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:16.805][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[2025-03-21 04:39:16.809][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 04:39:16.811][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-03-21 04:39:16.813][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 04:39:16.814][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-03-21 04:39:16.818][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:16.819][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:16.820][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:16.827][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:16.828][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:16.829][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:16.831][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:16.832][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:16.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:16.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:16.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:16.838][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:16.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:16.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:16.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:16.843][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:16.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:16.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:16.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:16.849][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:16.850][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:16.851][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:16.858][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:16.859][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:16.869][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:16.871][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:16.873][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:16.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:16.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:16.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:16.879][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:16.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:16.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:16.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:16.884][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:16.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:16.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:16.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:16.890][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-03-21 04:39:16.892][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:16.893][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:16.894][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:16.901][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:16.902][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:16.904][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:16.905][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:16.907][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:16.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:16.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:16.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:16.912][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:16.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:16.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:16.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:16.917][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 04:39:16.919][private$selectFields]
biodb.TRACE[2025-03-21 04:39:16.920][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-21 04:39:16.921][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-21 04:39:16.923][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 04:39:16.924][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:16.925][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:16.927][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:16.928][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:16.930][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:16.931][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:16.933][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:16.934][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:16.936][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 04:39:16.937][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 04:39:16.939][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:16.940][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:16.942][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:16.943][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:16.944][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-21 04:39:16.946][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:16.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:16.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:16.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:16.952][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:16.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:16.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:16.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:16.957][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:16.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:16.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:16.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:16.963][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-03-21 04:39:16.965][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:16.966][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:16.967][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:16.974][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:16.976][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:16.977][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:16.978][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:16.980][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:16.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:16.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:16.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:16.986][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:16.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:16.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:16.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:16.991][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 04:39:16.993][private$selectFields]
biodb.TRACE[2025-03-21 04:39:16.994][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-21 04:39:16.996][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-21 04:39:16.997][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 04:39:16.999][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.000][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.002][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.003][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.005][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.006][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.008][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.009][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.011][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 04:39:17.012][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 04:39:17.014][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.015][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.017][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.018][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.019][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-21 04:39:17.021][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.027][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.033][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.039][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-03-21 04:39:17.041][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:17.042][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:17.044][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:17.051][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:17.052][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:17.054][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:17.055][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:17.057][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.063][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.069][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 04:39:17.070][private$selectFields]
biodb.TRACE[2025-03-21 04:39:17.072][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-21 04:39:17.073][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-21 04:39:17.075][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 04:39:17.076][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.078][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.079][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.081][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.082][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.084][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.086][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.087][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.089][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 04:39:17.091][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 04:39:17.092][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.094][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.095][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.096][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.098][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-21 04:39:17.099][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.105][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.111][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.117][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-03-21 04:39:17.119][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-03-21 04:39:17.120][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-03-21 04:39:17.141][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:17.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:17.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.147][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:17.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:17.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.153][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:17.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:17.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.158][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:17.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:17.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:17.168][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:17.169][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:17.170][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:17.177][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:17.178][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:17.179][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:17.180][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:17.184][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[2025-03-21 04:39:17.189][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 04:39:17.191][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2025-03-21 04:39:17.192][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 04:39:17.194][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2025-03-21 04:39:17.198][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[2025-03-21 04:39:17.203][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 04:39:17.205][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2025-03-21 04:39:17.206][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 04:39:17.208][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2025-03-21 04:39:17.212][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:17.213][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:17.214][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:17.221][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:17.222][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:17.223][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:17.225][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[2025-03-21 04:39:17.226][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:17.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:17.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.232][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:17.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:17.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.237][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:17.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:17.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:17.243][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:17.244][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:17.245][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:17.252][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:17.253][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:17.254][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:17.256][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:17.257][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:17.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:17.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.263][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:17.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:17.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.268][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:17.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:17.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:17.274][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:17.275][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:17.276][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:17.282][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:17.284][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:17.285][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:17.286][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.TRACE[2025-03-21 04:39:17.288][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:17.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:17.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.293][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:17.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:17.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.299][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:17.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:17.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:17.305][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-03-21 04:39:17.307][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:17.308][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:17.309][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:17.316][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:17.317][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:17.318][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:17.319][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.TRACE[2025-03-21 04:39:17.321][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.327][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.332][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 04:39:17.333][private$selectFields]
biodb.TRACE[2025-03-21 04:39:17.334][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-21 04:39:17.336][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-21 04:39:17.337][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 04:39:17.338][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.340][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.341][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.342][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.344][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.345][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.346][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.348][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.349][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 04:39:17.350][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 04:39:17.352][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.353][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.354][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.356][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.357][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-21 04:39:17.358][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.364][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.369][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.375][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-03-21 04:39:17.376][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:17.386][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:17.387][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:17.394][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:17.396][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:17.397][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:17.398][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:17.400][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.405][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.410][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 04:39:17.412][private$selectFields]
biodb.TRACE[2025-03-21 04:39:17.413][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-21 04:39:17.414][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-21 04:39:17.416][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 04:39:17.417][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.419][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.420][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.421][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.423][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.424][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.425][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.427][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.428][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 04:39:17.429][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 04:39:17.431][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.432][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.433][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.435][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.436][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-21 04:39:17.437][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.443][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.448][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.454][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-03-21 04:39:17.455][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:17.457][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:17.458][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:17.464][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:17.466][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:17.467][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:17.468][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:17.470][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.476][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.482][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 04:39:17.483][private$selectFields]
biodb.TRACE[2025-03-21 04:39:17.485][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-21 04:39:17.486][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-21 04:39:17.487][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 04:39:17.489][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.490][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.492][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.493][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.494][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.496][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.497][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.498][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.500][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 04:39:17.501][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 04:39:17.503][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.504][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.505][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.507][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.508][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-21 04:39:17.510][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.515][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.521][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.527][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-03-21 04:39:17.528][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-03-21 04:39:17.530][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-03-21 04:39:17.541][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-03-21 04:39:17.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-03-21 04:39:17.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-03-21 04:39:17.551][biodb::testThat]
biodb.INFO [2025-03-21 04:39:17.553][biodb::testThat] Running test function test_annotateMzValues_input_dataframe_untouched (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2025-03-21 04:39:17.554][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-21 04:39:17.555][biodb::testThat]
biodb.TRACE[2025-03-21 04:39:17.559][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-03-21 04:39:17.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-03-21 04:39:17.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.565][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:17.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:17.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.571][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:17.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:17.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.576][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:17.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:17.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.582][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:17.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:17.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:17.593][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:17.595][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:17.596][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:17.602][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:17.603][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:17.605][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:17.606][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[2025-03-21 04:39:17.610][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[2025-03-21 04:39:17.614][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 04:39:17.616][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-03-21 04:39:17.618][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 04:39:17.620][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-03-21 04:39:17.624][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:17.625][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:17.626][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:17.641][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:17.643][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:17.644][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:17.645][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:17.647][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:17.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:17.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.653][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:17.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:17.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.658][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:17.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:17.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:17.664][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[2025-03-21 04:39:17.669][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 04:39:17.671][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-03-21 04:39:17.672][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 04:39:17.674][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-03-21 04:39:17.677][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:17.679][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:17.680][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:17.686][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:17.688][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:17.689][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:17.690][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.TRACE[2025-03-21 04:39:17.692][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:17.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:17.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.697][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:17.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:17.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.703][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:17.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:17.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:17.709][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:17.710][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:17.711][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:17.718][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:17.719][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:17.720][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:17.722][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:17.723][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:17.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:17.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.729][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:17.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:17.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.734][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:17.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:17.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:17.740][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-03-21 04:39:17.742][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:17.744][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:17.745][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:17.751][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:17.753][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:17.754][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:17.755][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[2025-03-21 04:39:17.757][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.762][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.767][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 04:39:17.769][private$selectFields]
biodb.TRACE[2025-03-21 04:39:17.770][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-21 04:39:17.771][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-21 04:39:17.772][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 04:39:17.774][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.775][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.776][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.778][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.779][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.780][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.782][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.783][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.784][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 04:39:17.786][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 04:39:17.787][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.788][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.790][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.791][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.792][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-21 04:39:17.793][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.799][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.804][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.810][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-03-21 04:39:17.811][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:17.812][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:17.813][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:17.820][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:17.821][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:17.822][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:17.824][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:17.825][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.831][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.836][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 04:39:17.837][private$selectFields]
biodb.TRACE[2025-03-21 04:39:17.839][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-21 04:39:17.840][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-21 04:39:17.841][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 04:39:17.843][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.844][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.845][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.847][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.848][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.849][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.851][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.852][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.853][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 04:39:17.855][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 04:39:17.856][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.858][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.859][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.861][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.862][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-21 04:39:17.863][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.870][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.875][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.889][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-03-21 04:39:17.891][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:17.893][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:17.894][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:17.901][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:17.902][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:17.903][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:17.904][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:17.906][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.912][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.917][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 04:39:17.918][private$selectFields]
biodb.TRACE[2025-03-21 04:39:17.920][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-21 04:39:17.921][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-21 04:39:17.922][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 04:39:17.924][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.925][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.927][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.928][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.929][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.931][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.932][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.933][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.935][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 04:39:17.936][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 04:39:17.937][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.939][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.940][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.942][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.943][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-21 04:39:17.944][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.950][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.955][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:17.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.961][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-03-21 04:39:17.962][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-03-21 04:39:17.964][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-03-21 04:39:17.990][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:17.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:17.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:17.995][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:17.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:17.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:17.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.001][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:18.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:18.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.007][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:18.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:18.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:18.017][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:18.019][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:18.020][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:18.026][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:18.028][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:18.029][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:18.030][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:18.034][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[2025-03-21 04:39:18.038][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 04:39:18.040][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2025-03-21 04:39:18.042][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 04:39:18.043][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2025-03-21 04:39:18.048][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[2025-03-21 04:39:18.052][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 04:39:18.054][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2025-03-21 04:39:18.056][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 04:39:18.057][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2025-03-21 04:39:18.061][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:18.062][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:18.063][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:18.070][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:18.071][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:18.072][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:18.074][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[2025-03-21 04:39:18.075][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:18.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:18.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.081][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:18.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:18.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.086][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:18.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:18.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:18.091][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:18.093][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:18.094][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:18.100][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:18.102][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:18.103][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:18.104][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:18.106][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:18.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:18.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.111][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:18.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:18.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.116][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:18.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:18.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:18.122][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:18.123][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:18.124][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:18.131][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:18.132][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:18.142][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:18.144][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:18.145][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:18.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:18.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.151][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:18.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:18.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.156][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:18.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:18.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:18.162][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-03-21 04:39:18.164][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:18.166][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:18.167][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:18.173][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:18.175][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:18.176][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:18.177][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:18.179][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:18.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:18.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.184][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:18.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:18.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.190][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 04:39:18.191][private$selectFields]
biodb.TRACE[2025-03-21 04:39:18.192][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-21 04:39:18.194][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-21 04:39:18.195][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 04:39:18.196][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:18.198][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:18.199][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.200][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.202][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:18.203][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:18.204][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.206][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.207][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 04:39:18.208][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 04:39:18.210][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:18.211][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:18.212][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.214][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.215][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-21 04:39:18.216][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:18.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:18.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.222][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:18.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:18.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.227][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:18.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:18.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.233][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-03-21 04:39:18.234][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:18.236][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:18.237][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:18.244][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:18.245][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:18.246][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:18.248][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:18.250][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:18.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:18.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.256][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:18.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:18.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.261][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 04:39:18.263][private$selectFields]
biodb.TRACE[2025-03-21 04:39:18.264][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-21 04:39:18.265][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-21 04:39:18.267][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 04:39:18.268][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:18.269][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:18.271][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.272][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.274][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:18.275][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:18.276][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.278][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.279][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 04:39:18.280][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 04:39:18.282][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:18.283][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:18.285][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.286][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.288][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-21 04:39:18.289][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:18.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:18.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.295][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:18.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:18.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.300][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:18.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:18.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.306][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-03-21 04:39:18.308][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:18.309][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:18.310][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:18.317][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:18.318][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:18.319][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:18.321][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:18.322][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:18.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:18.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.328][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:18.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:18.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.333][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 04:39:18.335][private$selectFields]
biodb.TRACE[2025-03-21 04:39:18.336][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-03-21 04:39:18.337][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-03-21 04:39:18.338][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 04:39:18.340][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:18.341][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:18.343][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.344][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.345][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:18.347][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:18.348][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.350][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.351][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 04:39:18.352][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-03-21 04:39:18.354][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:18.355][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:18.356][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.358][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.359][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-03-21 04:39:18.361][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:18.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:18.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.366][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:18.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:18.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.372][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:18.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:18.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.378][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-03-21 04:39:18.379][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-03-21 04:39:18.381][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-03-21 04:39:18.415][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-03-21 04:39:18.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-03-21 04:39:18.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-03-21 04:39:18.425][biodb::testThat]
biodb.INFO [2025-03-21 04:39:18.426][biodb::testThat] Running test function test.wrong.entry (" Wrong entry gives NULL ").
biodb.INFO [2025-03-21 04:39:18.428][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-21 04:39:18.429][biodb::testThat]
biodb.DEBUG[2025-03-21 04:39:18.431][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-03-21 04:39:18.433][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-21 04:39:18.435][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2025-03-21 04:39:18.437][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 04:39:18.439][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml".
biodb.DEBUG[2025-03-21 04:39:18.441][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-21 04:39:18.443][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-21 04:39:18.445][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-21 04:39:18.447][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:18.448][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:18.449][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:18.456][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:18.457][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:18.459][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:18.460][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:18.463][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:18.464][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:18.466][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.467][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.469][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:18.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:18.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.474][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 04:39:18.476][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 04:39:18.477][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.478][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.480][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 04:39:18.482][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 04:39:18.483][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.484][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.486][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 04:39:18.488][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 04:39:18.489][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.490][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.492][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 04:39:18.494][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 04:39:18.495][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.496][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.498][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:39:18.500][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:39:18.501][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.502][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.504][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 04:39:18.506][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:18.507][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.508][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.510][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:18.512][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:18.513][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.514][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.516][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 04:39:18.518][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 04:39:18.519][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.520][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.522][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 04:39:18.524][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 04:39:18.525][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.527][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.528][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 04:39:18.530][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 04:39:18.531][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.533][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.535][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:18.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:18.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.540][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:18.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:18.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.546][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:18.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:18.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.552][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:18.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:18.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.558][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:18.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:18.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.564][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:18.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:18.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.570][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:18.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:18.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.576][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:18.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:18.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.582][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:18.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:18.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.589][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:18.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:18.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:18.595][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2025-03-21 04:39:18.596][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-03-21 04:39:18.607][biodb::testThat]
biodb.INFO [2025-03-21 04:39:18.609][biodb::testThat] Running test function test.wrong.entry.among.good.ones (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-03-21 04:39:18.610][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-21 04:39:18.612][biodb::testThat]
biodb.DEBUG[2025-03-21 04:39:18.626][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2025-03-21 04:39:18.628][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2025-03-21 04:39:18.630][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
biodb.TRACE[2025-03-21 04:39:18.632][cch$loadFileContent] Trying to load 3 files from cache: [3]: "WRONGB, 2528, 7799".
biodb.TRACE[2025-03-21 04:39:18.634][cch$loadFileContent] file.exist = [3]: "TRUE, TRUE, TRUE".
biodb.TRACE[2025-03-21 04:39:18.639][loadFileContents] Loaded 3 files from cache: [3]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGB.xml, /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml, /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml".
biodb.DEBUG[2025-03-21 04:39:18.641][conn$getEntryContent] 3 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-21 04:39:18.642][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2025-03-21 04:39:18.644][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2025-03-21 04:39:18.647][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:18.658][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:18.659][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:18.667][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:18.669][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:18.670][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:18.671][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:18.675][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:18.676][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:18.678][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.679][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.681][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:18.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:18.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.688][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 04:39:18.690][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 04:39:18.691][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.693][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.695][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 04:39:18.696][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 04:39:18.698][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.699][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.702][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 04:39:18.704][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 04:39:18.705][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.707][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.709][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 04:39:18.710][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 04:39:18.712][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.713][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.715][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:39:18.716][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:39:18.718][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.719][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.721][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 04:39:18.723][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:18.724][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.726][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.728][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:18.729][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:18.731][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.732][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.734][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 04:39:18.736][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 04:39:18.737][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.739][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.741][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 04:39:18.743][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 04:39:18.745][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.746][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.748][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 04:39:18.749][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 04:39:18.751][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.752][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.754][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:18.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:18.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.759][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:18.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:18.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.765][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:18.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:18.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.771][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:18.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:18.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.776][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:18.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:18.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.782][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:18.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:18.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.787][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:18.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:18.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:18.793][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:18.794][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:18.795][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:18.801][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:18.803][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:18.804][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:18.805][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[2025-03-21 04:39:18.808][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:18.809][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:18.811][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.812][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.814][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:18.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:18.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.819][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 04:39:18.820][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 04:39:18.822][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.823][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.825][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 04:39:18.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 04:39:18.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.830][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 04:39:18.832][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 04:39:18.833][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.834][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.836][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 04:39:18.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 04:39:18.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.842][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 04:39:18.843][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 04:39:18.844][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.846][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.847][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 04:39:18.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 04:39:18.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.853][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 04:39:18.854][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 04:39:18.855][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.857][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.858][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 04:39:18.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 04:39:18.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.864][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:39:18.865][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:39:18.866][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.867][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.869][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:39:18.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:39:18.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.875][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 04:39:18.876][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:18.877][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.878][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.880][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 04:39:18.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:18.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.885][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:18.887][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:18.888][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.889][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.891][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:18.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:18.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.896][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 04:39:18.898][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 04:39:18.899][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.900][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.902][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 04:39:18.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 04:39:18.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.916][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 04:39:18.918][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 04:39:18.919][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.921][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.922][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 04:39:18.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 04:39:18.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.928][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 04:39:18.929][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 04:39:18.930][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.932][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.933][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 04:39:18.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 04:39:18.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.939][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:18.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:18.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.944][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:18.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:18.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.949][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:18.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:18.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.954][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:18.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:18.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.960][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:18.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:18.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.965][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:18.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:18.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.970][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:18.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:18.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:18.976][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:18.977][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:18.978][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:18.984][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:18.986][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:18.987][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:18.988][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.TRACE[2025-03-21 04:39:18.991][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:18.993][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:18.994][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:18.995][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:18.997][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:18.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:18.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:19.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:19.002][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 04:39:19.003][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 04:39:19.005][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:19.006][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:19.008][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 04:39:19.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 04:39:19.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:19.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:19.013][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 04:39:19.014][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 04:39:19.016][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:19.017][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:19.019][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 04:39:19.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 04:39:19.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:19.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:19.024][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 04:39:19.025][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 04:39:19.026][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:19.028][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:19.029][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 04:39:19.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 04:39:19.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:19.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:19.035][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 04:39:19.036][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 04:39:19.037][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:19.039][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:19.040][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 04:39:19.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 04:39:19.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:19.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:19.046][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:39:19.047][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:39:19.048][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:19.050][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:19.051][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:39:19.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:39:19.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:19.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:19.057][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 04:39:19.058][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:19.059][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:19.060][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:19.062][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 04:39:19.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:19.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:19.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:19.068][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:19.069][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:19.070][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:19.072][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:19.073][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:19.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:19.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:19.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:19.079][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 04:39:19.080][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 04:39:19.082][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:19.083][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:19.085][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 04:39:19.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 04:39:19.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:19.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:19.090][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 04:39:19.092][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 04:39:19.093][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:19.094][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:19.096][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 04:39:19.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 04:39:19.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:19.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:19.101][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 04:39:19.102][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 04:39:19.104][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:19.105][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:19.107][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 04:39:19.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 04:39:19.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:19.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:19.112][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:19.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:19.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:19.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:19.117][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:19.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:19.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:19.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:19.123][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:19.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:19.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:19.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:19.128][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:19.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:19.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:19.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:19.133][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:19.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:19.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:19.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:19.138][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:19.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:19.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:19.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:19.152][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:19.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:19.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:19.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:19.158][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:19.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:19.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:19.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:19.163][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:19.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:19.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:19.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:19.169][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:19.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:19.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:19.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:19.174][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:19.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:19.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:19.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:19.180][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:19.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:19.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:19.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:19.185][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:19.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:19.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:19.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:19.190][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:19.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:19.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:19.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:19.196][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:19.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:19.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:19.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:19.201][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:19.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:19.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:19.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:19.206][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2025-03-21 04:39:19.207][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-03-21 04:39:19.209][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2025-03-21 04:39:19.226][biodb::testThat]
biodb.INFO [2025-03-21 04:39:19.227][biodb::testThat] Running test function test.peak.table (" The peak table is correct. ").
biodb.INFO [2025-03-21 04:39:19.228][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-21 04:39:19.229][biodb::testThat]
biodb.INFO [2025-03-21 04:39:19.262][biodb::testThat]
biodb.INFO [2025-03-21 04:39:19.263][biodb::testThat] Running test function test.nb.entries (" Nb entries is positive. ").
biodb.INFO [2025-03-21 04:39:19.265][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-21 04:39:19.266][biodb::testThat]
biodb.INFO [2025-03-21 04:39:19.276][biodb::testThat]
biodb.INFO [2025-03-21 04:39:19.278][biodb::testThat] Running test function test.entry.ids (" We can get a list of entry ids. ").
biodb.INFO [2025-03-21 04:39:19.279][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-21 04:39:19.280][biodb::testThat]
biodb.DEBUG[2025-03-21 04:39:19.284][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[2025-03-21 04:39:19.288][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 04:39:19.290][cch$loadFileContent] Trying to load 1 files from cache: [1]: "aed2cd6d5d221333c0a30a9f8dbc41b4".
biodb.TRACE[2025-03-21 04:39:19.292][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 04:39:19.295][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/aed2cd6d5d221333c0a30a9f8dbc41b4.content".
biodb.TRACE[2025-03-21 04:39:19.310][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 04:39:19.312][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 04:39:19.313][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:19.314][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:19.316][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:19.317][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:19.318][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:19.320][ef$get] fields variable is a list.
biodb.INFO [2025-03-21 04:39:19.322][biodb::testThat]
biodb.INFO [2025-03-21 04:39:19.323][biodb::testThat] Running test function test.annotateMzValues (" annotateMzValues() works correctly. ").
biodb.INFO [2025-03-21 04:39:19.324][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-21 04:39:19.325][biodb::testThat]
biodb.ERROR[2025-03-21 04:39:19.344][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2025-03-21 04:39:19.369][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2025-03-21 04:39:19.397][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-03-21 04:39:19.399][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-03-21 04:39:19.401][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-03-21 04:39:19.402][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-03-21 04:39:19.403][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:19.405][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:19.406][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:19.407][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:19.408][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:19.410][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-03-21 04:39:19.423][biodb::testContext]
biodb.INFO [2025-03-21 04:39:19.425][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-21 04:39:19.426][biodb::testContext] Test context - Test conversions
biodb.INFO [2025-03-21 04:39:19.428][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-21 04:39:19.429][biodb::testContext]
biodb.INFO [2025-03-21 04:39:19.432][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.15.0.
biodb.DEBUG[2025-03-21 04:39:19.434][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-devel_2025-02-19/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-03-21 04:39:19.438][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-21 04:39:19.440][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-03-21 04:39:19.441][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-03-21 04:39:19.442][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:19.444][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:19.445][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:19.446][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-03-21 04:39:19.447][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-03-21 04:39:19.449][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:19.450][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:19.451][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:19.452][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-03-21 04:39:19.454][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-03-21 04:39:19.455][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:19.456][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:19.457][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:19.458][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-03-21 04:39:19.459][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-03-21 04:39:19.461][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-03-21 04:39:19.462][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:19.463][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:19.464][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:19.466][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-03-21 04:39:19.467][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-03-21 04:39:19.468][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-03-21 04:39:19.469][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:19.470][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:19.472][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:19.473][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-03-21 04:39:19.474][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-03-21 04:39:19.475][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:19.476][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:19.478][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:19.479][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-03-21 04:39:19.480][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-03-21 04:39:19.482][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-03-21 04:39:19.483][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:19.484][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:19.485][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:19.486][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-03-21 04:39:19.488][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-03-21 04:39:19.489][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:19.490][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:19.491][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[2025-03-21 04:39:19.492][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-03-21 04:39:19.494][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-03-21 04:39:19.495][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-03-21 04:39:19.496][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:19.497][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:19.498][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:19.500][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-03-21 04:39:19.501][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-03-21 04:39:19.502][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-03-21 04:39:19.503][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-03-21 04:39:19.505][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-03-21 04:39:19.506][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-03-21 04:39:19.507][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:19.508][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:19.510][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.DEBUG[2025-03-21 04:39:19.511][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-03-21 04:39:19.512][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-03-21 04:39:19.513][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:19.514][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:19.516][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:19.517][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-03-21 04:39:19.518][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-03-21 04:39:19.519][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:19.521][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:19.522][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:19.523][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-03-21 04:39:19.524][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-03-21 04:39:19.526][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:19.527][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:19.528][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:19.529][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-03-21 04:39:19.531][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-03-21 04:39:19.532][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:19.533][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:19.534][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:19.535][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-03-21 04:39:19.537][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-03-21 04:39:19.538][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:19.539][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:19.540][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:19.541][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-03-21 04:39:19.543][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-03-21 04:39:19.547][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-03-21 04:39:19.549][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:19.550][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:19.551][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:19.552][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-03-21 04:39:19.554][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-03-21 04:39:19.555][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-03-21 04:39:19.556][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:19.557][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:19.559][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:19.560][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-03-21 04:39:19.563][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-21 04:39:19.564][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-03-21 04:39:19.565][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-21 04:39:19.567][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-21 04:39:19.568][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-21 04:39:19.569][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-21 04:39:19.570][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-21 04:39:19.572][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-21 04:39:19.573][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-21 04:39:19.574][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-21 04:39:19.576][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-21 04:39:19.577][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-03-21 04:39:19.578][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-21 04:39:19.580][self$setPropertyValue]
biodb.DEBUG[2025-03-21 04:39:19.581][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-21 04:39:19.582][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-21 04:39:19.582][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-21 04:39:19.582][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-21 04:39:19.582][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-21 04:39:19.582][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-21 04:39:19.584][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-21 04:39:19.585][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 04:39:19.586][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 04:39:19.587][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-21 04:39:19.589][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 04:39:19.590][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 04:39:19.591][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-21 04:39:19.593][self$setPropertyValue]
biodb.DEBUG[2025-03-21 04:39:19.594][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-21 04:39:19.595][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-21 04:39:19.597][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-21 04:39:19.598][self$setPropertyValue]
biodb.DEBUG[2025-03-21 04:39:19.600][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-03-21 04:39:19.603][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-21 04:39:19.604][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-03-21 04:39:19.606][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-21 04:39:19.607][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-21 04:39:19.609][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-21 04:39:19.610][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-21 04:39:19.612][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-21 04:39:19.613][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-21 04:39:19.615][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-21 04:39:19.616][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-21 04:39:19.618][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-21 04:39:19.619][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-03-21 04:39:19.621][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-21 04:39:19.622][self$setPropertyValue]
biodb.DEBUG[2025-03-21 04:39:19.633][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-21 04:39:19.635][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-21 04:39:19.635][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-21 04:39:19.635][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-21 04:39:19.635][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-21 04:39:19.635][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-21 04:39:19.637][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-21 04:39:19.639][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 04:39:19.640][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 04:39:19.642][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-21 04:39:19.644][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 04:39:19.645][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 04:39:19.647][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-21 04:39:19.648][self$setPropertyValue]
biodb.DEBUG[2025-03-21 04:39:19.650][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-21 04:39:19.651][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-21 04:39:19.653][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-21 04:39:19.654][self$setPropertyValue]
biodb.DEBUG[2025-03-21 04:39:19.656][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-03-21 04:39:19.659][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-21 04:39:19.661][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-03-21 04:39:19.662][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-21 04:39:19.664][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-21 04:39:19.666][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-21 04:39:19.667][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-21 04:39:19.669][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-21 04:39:19.671][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-21 04:39:19.672][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-21 04:39:19.674][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-21 04:39:19.676][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-21 04:39:19.677][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-03-21 04:39:19.679][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-21 04:39:19.681][self$setPropertyValue]
biodb.DEBUG[2025-03-21 04:39:19.683][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-21 04:39:19.684][self$setPropertyValue]
biodb.DEBUG[2025-03-21 04:39:19.686][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-21 04:39:19.688][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 04:39:19.689][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 04:39:19.691][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-21 04:39:19.693][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 04:39:19.694][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 04:39:19.696][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-21 04:39:19.697][self$setPropertyValue]
biodb.DEBUG[2025-03-21 04:39:19.699][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-21 04:39:19.701][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-21 04:39:19.702][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-21 04:39:19.703][self$setPropertyValue]
biodb.DEBUG[2025-03-21 04:39:19.705][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-03-21 04:39:19.708][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-21 04:39:19.709][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-03-21 04:39:19.711][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-21 04:39:19.712][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-21 04:39:19.714][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-21 04:39:19.715][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-21 04:39:19.716][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-21 04:39:19.718][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-21 04:39:19.719][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-21 04:39:19.721][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-21 04:39:19.722][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-21 04:39:19.723][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-03-21 04:39:19.725][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-21 04:39:19.726][self$setPropertyValue]
biodb.DEBUG[2025-03-21 04:39:19.728][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-21 04:39:19.729][self$setPropertyValue]
biodb.DEBUG[2025-03-21 04:39:19.731][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-21 04:39:19.732][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 04:39:19.733][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 04:39:19.735][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-21 04:39:19.736][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 04:39:19.737][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 04:39:19.739][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-21 04:39:19.740][self$setPropertyValue]
biodb.DEBUG[2025-03-21 04:39:19.741][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-21 04:39:19.743][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-21 04:39:19.744][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-21 04:39:19.745][self$setPropertyValue]
biodb.DEBUG[2025-03-21 04:39:19.747][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-21 04:39:19.748][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:19.750][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[2025-03-21 04:39:19.751][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:19.752][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:19.753][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:19.755][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:19.756][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.DEBUG[2025-03-21 04:39:19.757][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:19.758][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:19.760][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:19.761][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:19.762][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:19.763][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:19.765][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:19.766][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:19.767][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:19.768][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:19.770][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:19.771][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:19.772][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:19.773][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:19.774][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.DEBUG[2025-03-21 04:39:19.776][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:19.777][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:19.778][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:19.779][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:19.780][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:19.782][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:19.783][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:19.784][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:19.785][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:19.787][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:19.788][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:19.789][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:19.790][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:19.792][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:19.793][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:19.794][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:19.795][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:19.797][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:19.798][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:19.799][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:19.800][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:19.802][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:19.803][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:19.804][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:19.805][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.DEBUG[2025-03-21 04:39:19.807][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:19.808][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:19.809][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:19.810][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:19.812][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:19.813][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:19.814][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:19.815][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:19.817][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:19.818][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.DEBUG[2025-03-21 04:39:19.819][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:19.820][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:19.822][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:19.823][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:19.824][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[2025-03-21 04:39:19.826][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:19.827][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:19.828][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:19.829][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:19.831][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[2025-03-21 04:39:19.832][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:19.833][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:19.834][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:19.835][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:19.837][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:19.838][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:19.839][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:19.841][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:19.842][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:19.843][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:19.844][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:19.846][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:19.847][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:19.848][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:19.849][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:19.851][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:19.852][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:19.853][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:19.854][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:19.856][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:19.857][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-03-21 04:39:19.859][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-03-21 04:39:19.861][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-03-21 04:39:19.863][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-03-21 04:39:19.865][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-03-21 04:39:19.867][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-03-21 04:39:19.869][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-03-21 04:39:19.871][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-03-21 04:39:19.873][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-03-21 04:39:19.883][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-03-21 04:39:19.886][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-21 04:39:19.888][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-03-21 04:39:19.890][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-03-21 04:39:19.892][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-03-21 04:39:19.894][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-03-21 04:39:19.896][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-03-21 04:39:19.898][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-03-21 04:39:19.900][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-03-21 04:39:19.902][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-03-21 04:39:19.904][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-03-21 04:39:19.906][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-03-21 04:39:19.908][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-03-21 04:39:19.910][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-03-21 04:39:19.912][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-03-21 04:39:19.914][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-03-21 04:39:19.916][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-03-21 04:39:19.918][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-03-21 04:39:19.920][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-03-21 04:39:19.922][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-03-21 04:39:19.924][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-03-21 04:39:19.926][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-03-21 04:39:19.927][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-03-21 04:39:19.929][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-03-21 04:39:19.931][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-03-21 04:39:19.933][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-03-21 04:39:19.935][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-03-21 04:39:19.937][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-03-21 04:39:19.939][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-03-21 04:39:19.941][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-03-21 04:39:19.943][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-03-21 04:39:19.945][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-03-21 04:39:19.947][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-03-21 04:39:19.949][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-03-21 04:39:19.950][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-03-21 04:39:19.952][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-03-21 04:39:19.954][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-03-21 04:39:19.956][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-03-21 04:39:19.958][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-03-21 04:39:19.960][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-03-21 04:39:19.962][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-03-21 04:39:19.964][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-03-21 04:39:19.966][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-03-21 04:39:19.968][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-03-21 04:39:19.970][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-03-21 04:39:19.972][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-03-21 04:39:19.974][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-03-21 04:39:19.977][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-03-21 04:39:19.979][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-03-21 04:39:19.981][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-03-21 04:39:19.983][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-03-21 04:39:19.985][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-03-21 04:39:19.987][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-03-21 04:39:19.989][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-03-21 04:39:19.991][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-03-21 04:39:19.993][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-03-21 04:39:19.995][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-03-21 04:39:19.997][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-03-21 04:39:19.999][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-03-21 04:39:20.001][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-03-21 04:39:20.003][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-03-21 04:39:20.005][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-03-21 04:39:20.007][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-03-21 04:39:20.009][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-03-21 04:39:20.011][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-03-21 04:39:20.013][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-03-21 04:39:20.015][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-03-21 04:39:20.017][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-03-21 04:39:20.019][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-03-21 04:39:20.021][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-03-21 04:39:20.023][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-03-21 04:39:20.025][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-03-21 04:39:20.027][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-03-21 04:39:20.029][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-03-21 04:39:20.031][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-03-21 04:39:20.034][initialize] This is biodb version 1.15.0.
biodb.DEBUG[2025-03-21 04:39:20.035][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-21 04:39:20.036][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:20.038][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:20.039][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:20.040][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[2025-03-21 04:39:20.041][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:20.043][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:20.044][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:20.045][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:20.046][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:20.048][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:20.049][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.DEBUG[2025-03-21 04:39:20.050][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:20.052][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:20.053][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:20.054][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:20.055][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:20.057][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:20.058][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:20.059][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:20.060][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:20.062][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:20.063][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:20.064][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:20.065][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:20.067][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:20.068][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:20.069][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:20.070][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:20.072][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:20.073][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:20.074][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:20.076][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:20.077][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:20.078][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:20.079][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:20.081][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:20.082][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:20.083][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:20.084][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:20.086][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:20.087][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:20.088][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:20.090][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:20.091][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:20.092][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:20.093][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:20.095][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:20.096][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:20.097][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:20.098][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:20.100][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:20.101][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:20.102][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:20.104][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:20.105][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:20.106][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:20.107][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:20.109][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:20.110][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:20.111][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:20.113][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:20.114][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:20.125][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:20.127][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:20.128][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:20.130][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:20.131][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:20.133][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:20.134][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:20.135][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:20.137][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:20.138][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:20.139][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:20.140][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:20.142][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:20.143][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:20.144][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:20.145][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:20.146][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:20.148][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:20.149][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:20.150][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:20.151][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:20.152][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:20.154][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:20.155][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:20.156][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:20.157][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:20.159][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:20.160][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:20.161][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:20.162][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:20.163][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:20.165][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:20.166][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[2025-03-21 04:39:20.167][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:20.168][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:20.170][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:20.171][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:20.172][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:20.173][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:20.174][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:20.176][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:20.177][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:20.178][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:20.179][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:20.180][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:20.182][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:20.183][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[2025-03-21 04:39:20.184][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:20.185][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:20.186][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:20.188][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:20.189][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:20.190][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:20.191][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:20.193][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:20.194][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:20.195][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:20.196][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:20.197][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:20.199][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:20.200][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:20.202][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-devel_2025-02-19/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-03-21 04:39:20.204][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-03-21 04:39:20.206][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-21 04:39:20.208][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-03-21 04:39:20.209][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-21 04:39:20.211][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-21 04:39:20.212][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-21 04:39:20.213][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-21 04:39:20.215][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-03-21 04:39:20.216][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-03-21 04:39:20.217][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-03-21 04:39:20.219][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-21 04:39:20.220][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-21 04:39:20.221][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-03-21 04:39:20.223][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-21 04:39:20.224][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-03-21 04:39:20.224][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-03-21 04:39:20.224][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-03-21 04:39:20.224][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-03-21 04:39:20.224][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-03-21 04:39:20.224][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-03-21 04:39:20.224][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-03-21 04:39:20.224][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-03-21 04:39:20.224][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-03-21 04:39:20.224][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-03-21 04:39:20.224][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-03-21 04:39:20.226][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-03-21 04:39:20.227][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-21 04:39:20.227][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-21 04:39:20.227][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-21 04:39:20.228][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-03-21 04:39:20.230][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 04:39:20.231][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 04:39:20.232][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-21 04:39:20.234][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 04:39:20.235][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 04:39:20.236][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-21 04:39:20.237][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-03-21 04:39:20.237][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-03-21 04:39:20.239][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-21 04:39:20.240][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-21 04:39:20.241][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-03-21 04:39:20.243][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-03-21 04:39:20.243][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-03-21 04:39:20.245][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-03-21 04:39:20.247][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-21 04:39:20.249][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-03-21 04:39:20.251][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-03-21 04:39:20.253][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-03-21 04:39:20.255][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-03-21 04:39:20.260][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-03-21 04:39:20.262][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-03-21 04:39:20.263][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-03-21 04:39:20.265][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-03-21 04:39:20.267][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-21 04:39:20.268][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-21 04:39:20.270][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-03-21 04:39:20.271][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-03-21 04:39:20.273][biodb::testThat]
biodb.INFO [2025-03-21 04:39:20.274][biodb::testThat] Running test function test_chebi_convCasToChebi (" convCasToChebi() works. ").
biodb.INFO [2025-03-21 04:39:20.276][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-21 04:39:20.277][biodb::testThat]
biodb.DEBUG[2025-03-21 04:39:20.282][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-03-21 04:39:20.287][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 04:39:20.289][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2025-03-21 04:39:20.290][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 04:39:20.292][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2025-03-21 04:39:20.297][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[2025-03-21 04:39:20.302][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 04:39:20.303][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2025-03-21 04:39:20.305][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 04:39:20.308][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2025-03-21 04:39:20.310][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:20.311][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:20.312][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:20.319][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:20.320][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:20.321][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:20.323][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:20.325][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[2025-03-21 04:39:20.329][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 04:39:20.331][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2025-03-21 04:39:20.333][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 04:39:20.337][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2025-03-21 04:39:20.339][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:20.340][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:20.341][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:20.347][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:20.349][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:20.350][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:20.351][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[2025-03-21 04:39:20.385][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:20.386][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:20.388][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:20.394][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:20.395][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:20.396][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:20.398][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:20.405][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[2025-03-21 04:39:20.409][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 04:39:20.411][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2025-03-21 04:39:20.413][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 04:39:20.415][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2025-03-21 04:39:20.417][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:20.419][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:20.420][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:20.426][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:20.427][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:20.429][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:20.430][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:20.432][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[2025-03-21 04:39:20.437][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 04:39:20.438][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2025-03-21 04:39:20.440][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 04:39:20.442][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2025-03-21 04:39:20.444][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:20.445][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:20.447][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:20.453][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:20.454][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:20.455][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:20.457][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[2025-03-21 04:39:20.458][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:20.459][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:20.460][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:20.467][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:20.468][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:20.469][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:20.471][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:20.476][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[2025-03-21 04:39:20.480][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 04:39:20.482][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2025-03-21 04:39:20.484][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 04:39:20.485][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2025-03-21 04:39:20.488][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:20.489][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:20.490][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:20.496][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:20.498][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:20.499][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:20.500][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[2025-03-21 04:39:20.503][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[2025-03-21 04:39:20.507][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 04:39:20.509][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2025-03-21 04:39:20.510][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 04:39:20.512][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2025-03-21 04:39:20.514][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:20.516][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:20.517][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:20.523][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:20.525][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:20.526][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:20.527][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:20.530][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[2025-03-21 04:39:20.535][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 04:39:20.537][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70e3912746e7e39b39fbbffe6c90b502".
biodb.TRACE[2025-03-21 04:39:20.538][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 04:39:20.542][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70e3912746e7e39b39fbbffe6c90b502.content".
biodb.DEBUG[2025-03-21 04:39:20.544][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:20.545][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:20.547][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:20.554][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:20.555][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:20.556][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:20.558][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-03-21 04:39:20.567][biodb::testThat]
biodb.INFO [2025-03-21 04:39:20.569][biodb::testThat] Running test function test_chebi_convInchiToChebi (" convInchiToChebi() works. ").
biodb.INFO [2025-03-21 04:39:20.570][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-21 04:39:20.571][biodb::testThat]
biodb.DEBUG[2025-03-21 04:39:20.575][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[2025-03-21 04:39:20.580][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 04:39:20.582][cch$loadFileContent] Trying to load 1 files from cache: [1]: "64007787a4f3864bb479683766386808".
biodb.TRACE[2025-03-21 04:39:20.584][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 04:39:20.586][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/64007787a4f3864bb479683766386808.content".
biodb.DEBUG[2025-03-21 04:39:20.589][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:20.590][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:20.591][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:20.598][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:20.599][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:20.600][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:20.601][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:20.607][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[2025-03-21 04:39:20.611][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 04:39:20.613][cch$loadFileContent] Trying to load 1 files from cache: [1]: "7547b08b3ebd50447d61026ab0af8d63".
biodb.TRACE[2025-03-21 04:39:20.615][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 04:39:20.627][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7547b08b3ebd50447d61026ab0af8d63.content".
biodb.DEBUG[2025-03-21 04:39:20.629][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:20.631][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:20.632][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:20.638][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:20.640][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:20.641][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:20.642][FUN] Functions in observer BiodbConfig: [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 [2025-03-21 04:39:20.649][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-03-21 04:39:20.651][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-03-21 04:39:20.652][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-03-21 04:39:20.653][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-03-21 04:39:20.654][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:20.656][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:20.657][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:20.658][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:20.659][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:20.660][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.INFO [2025-03-21 04:39:20.665][biodb::testContext]
biodb.INFO [2025-03-21 04:39:20.666][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-21 04:39:20.668][biodb::testContext] Test context - Test web services
biodb.INFO [2025-03-21 04:39:20.669][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-21 04:39:20.670][biodb::testContext]
biodb.INFO [2025-03-21 04:39:20.673][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.15.0.
biodb.DEBUG[2025-03-21 04:39:20.675][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-devel_2025-02-19/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-03-21 04:39:20.680][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-21 04:39:20.681][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-03-21 04:39:20.683][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-03-21 04:39:20.684][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:20.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:20.686][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:20.688][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-03-21 04:39:20.689][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-03-21 04:39:20.690][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:20.692][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:20.693][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.DEBUG[2025-03-21 04:39:20.694][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-03-21 04:39:20.696][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-03-21 04:39:20.697][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:20.698][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:20.699][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:20.700][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-03-21 04:39:20.702][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-03-21 04:39:20.703][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-03-21 04:39:20.704][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:20.706][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:20.707][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[2025-03-21 04:39:20.708][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-03-21 04:39:20.710][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-03-21 04:39:20.711][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-03-21 04:39:20.712][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:20.713][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:20.715][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:20.716][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-03-21 04:39:20.717][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-03-21 04:39:20.719][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:20.720][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:20.721][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:20.722][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-03-21 04:39:20.724][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-03-21 04:39:20.725][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-03-21 04:39:20.726][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:20.728][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:20.729][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:20.730][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-03-21 04:39:20.732][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-03-21 04:39:20.733][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:20.734][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:20.735][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[2025-03-21 04:39:20.737][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-03-21 04:39:20.738][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-03-21 04:39:20.740][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-03-21 04:39:20.741][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:20.742][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:20.744][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:20.745][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-03-21 04:39:20.747][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-03-21 04:39:20.748][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-03-21 04:39:20.749][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-03-21 04:39:20.751][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-03-21 04:39:20.752][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-03-21 04:39:20.754][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:20.755][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:20.756][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.DEBUG[2025-03-21 04:39:20.757][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-03-21 04:39:20.759][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-03-21 04:39:20.760][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:20.761][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:20.763][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:20.764][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-03-21 04:39:20.765][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-03-21 04:39:20.767][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:20.768][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:20.769][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:20.770][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-03-21 04:39:20.772][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-03-21 04:39:20.773][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:20.774][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:20.776][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:20.777][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-03-21 04:39:20.779][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-03-21 04:39:20.780][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:20.781][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:20.782][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[2025-03-21 04:39:20.784][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-03-21 04:39:20.785][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-03-21 04:39:20.787][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:20.788][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:20.789][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:20.791][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-03-21 04:39:20.792][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-03-21 04:39:20.797][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-03-21 04:39:20.799][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:20.800][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:20.802][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:20.803][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-03-21 04:39:20.805][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-03-21 04:39:20.806][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-03-21 04:39:20.808][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:20.809][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:20.810][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:20.812][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-03-21 04:39:20.815][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-21 04:39:20.816][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-03-21 04:39:20.818][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-21 04:39:20.819][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-21 04:39:20.820][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-21 04:39:20.822][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-21 04:39:20.823][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-21 04:39:20.825][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-21 04:39:20.826][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-21 04:39:20.828][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-21 04:39:20.829][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-21 04:39:20.830][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-03-21 04:39:20.832][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-21 04:39:20.833][self$setPropertyValue]
biodb.DEBUG[2025-03-21 04:39:20.835][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-21 04:39:20.836][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-21 04:39:20.836][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-21 04:39:20.836][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-21 04:39:20.836][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-21 04:39:20.836][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-21 04:39:20.838][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-21 04:39:20.839][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 04:39:20.840][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 04:39:20.842][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-21 04:39:20.843][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 04:39:20.844][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 04:39:20.846][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-21 04:39:20.847][self$setPropertyValue]
biodb.DEBUG[2025-03-21 04:39:20.848][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-21 04:39:20.850][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-21 04:39:20.851][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-21 04:39:20.853][self$setPropertyValue]
biodb.DEBUG[2025-03-21 04:39:20.854][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-03-21 04:39:20.857][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-21 04:39:20.858][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-03-21 04:39:20.860][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-21 04:39:20.862][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-21 04:39:20.863][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-21 04:39:21.091][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-21 04:39:21.092][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-21 04:39:21.094][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-21 04:39:21.095][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-21 04:39:21.096][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-21 04:39:21.098][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-21 04:39:21.099][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-03-21 04:39:21.101][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-21 04:39:21.102][self$setPropertyValue]
biodb.DEBUG[2025-03-21 04:39:21.103][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-21 04:39:21.105][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-21 04:39:21.105][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-21 04:39:21.105][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-21 04:39:21.105][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-21 04:39:21.105][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-21 04:39:21.106][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-21 04:39:21.107][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 04:39:21.109][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 04:39:21.110][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-21 04:39:21.111][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 04:39:21.113][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 04:39:21.114][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-21 04:39:21.115][self$setPropertyValue]
biodb.DEBUG[2025-03-21 04:39:21.117][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-21 04:39:21.118][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-21 04:39:21.119][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-21 04:39:21.121][self$setPropertyValue]
biodb.DEBUG[2025-03-21 04:39:21.122][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-03-21 04:39:21.125][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-21 04:39:21.126][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-03-21 04:39:21.128][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-21 04:39:21.129][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-21 04:39:21.130][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-21 04:39:21.132][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-21 04:39:21.133][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-21 04:39:21.135][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-21 04:39:21.136][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-21 04:39:21.137][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-21 04:39:21.139][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-21 04:39:21.140][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-03-21 04:39:21.142][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-21 04:39:21.143][self$setPropertyValue]
biodb.DEBUG[2025-03-21 04:39:21.144][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-21 04:39:21.146][self$setPropertyValue]
biodb.DEBUG[2025-03-21 04:39:21.147][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-21 04:39:21.149][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 04:39:21.150][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 04:39:21.151][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-21 04:39:21.153][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 04:39:21.154][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 04:39:21.155][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-21 04:39:21.157][self$setPropertyValue]
biodb.DEBUG[2025-03-21 04:39:21.158][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-21 04:39:21.159][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-21 04:39:21.160][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-21 04:39:21.162][self$setPropertyValue]
biodb.DEBUG[2025-03-21 04:39:21.163][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-03-21 04:39:21.166][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-21 04:39:21.167][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-03-21 04:39:21.169][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-21 04:39:21.170][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-21 04:39:21.172][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-21 04:39:21.173][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-21 04:39:21.174][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-21 04:39:21.176][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-21 04:39:21.177][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-21 04:39:21.178][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-21 04:39:21.180][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-21 04:39:21.181][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-03-21 04:39:21.183][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-21 04:39:21.184][self$setPropertyValue]
biodb.DEBUG[2025-03-21 04:39:21.185][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-21 04:39:21.187][self$setPropertyValue]
biodb.DEBUG[2025-03-21 04:39:21.188][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-21 04:39:21.190][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 04:39:21.191][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 04:39:21.192][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-21 04:39:21.194][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 04:39:21.195][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 04:39:21.196][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-21 04:39:21.198][self$setPropertyValue]
biodb.DEBUG[2025-03-21 04:39:21.199][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-21 04:39:21.200][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-21 04:39:21.201][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-21 04:39:21.203][self$setPropertyValue]
biodb.DEBUG[2025-03-21 04:39:21.205][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-21 04:39:21.206][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:21.207][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:21.209][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:21.210][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:21.211][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:21.212][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:21.214][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:21.215][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:21.216][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:21.217][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:21.218][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:21.220][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:21.221][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:21.222][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:21.223][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:21.225][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:21.226][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.DEBUG[2025-03-21 04:39:21.227][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:21.228][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:21.230][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:21.231][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:21.232][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[2025-03-21 04:39:21.233][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:21.235][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:21.236][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:21.237][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:21.239][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[2025-03-21 04:39:21.240][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:21.241][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:21.242][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:21.244][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:21.245][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[2025-03-21 04:39:21.246][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:21.247][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:21.249][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:21.250][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:21.251][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:21.253][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:21.254][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:21.255][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:21.256][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:21.258][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:21.259][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:21.260][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:21.262][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:21.263][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:21.264][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[2025-03-21 04:39:21.266][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:21.267][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:21.268][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:21.269][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:21.271][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[2025-03-21 04:39:21.272][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:21.273][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:21.275][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:21.276][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:21.277][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[2025-03-21 04:39:21.279][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:21.280][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:21.281][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:21.283][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:21.284][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:21.285][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:21.287][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:21.288][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:21.289][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:21.290][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:21.292][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:21.293][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:21.294][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:21.295][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:21.297][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[2025-03-21 04:39:21.298][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:21.299][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:21.301][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:21.302][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:21.303][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[2025-03-21 04:39:21.304][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:21.306][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:21.307][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:21.308][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:21.309][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.DEBUG[2025-03-21 04:39:21.311][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:21.312][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:21.313][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:21.314][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:21.316][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:21.317][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-03-21 04:39:21.319][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-03-21 04:39:21.321][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-03-21 04:39:21.323][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-03-21 04:39:21.325][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-03-21 04:39:21.327][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-03-21 04:39:21.329][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-03-21 04:39:21.331][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-03-21 04:39:21.333][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-03-21 04:39:21.342][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-03-21 04:39:21.345][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-21 04:39:21.347][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-03-21 04:39:21.349][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-03-21 04:39:21.351][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-03-21 04:39:21.353][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-03-21 04:39:21.355][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-03-21 04:39:21.357][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-03-21 04:39:21.360][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-03-21 04:39:21.362][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-03-21 04:39:21.364][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-03-21 04:39:21.366][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-03-21 04:39:21.368][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-03-21 04:39:21.370][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-03-21 04:39:21.372][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-03-21 04:39:21.375][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-03-21 04:39:21.377][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-03-21 04:39:21.379][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-03-21 04:39:21.381][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-03-21 04:39:21.383][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-03-21 04:39:21.386][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-03-21 04:39:21.388][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-03-21 04:39:21.390][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-03-21 04:39:21.392][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-03-21 04:39:21.394][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-03-21 04:39:21.397][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-03-21 04:39:21.399][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-03-21 04:39:21.401][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-03-21 04:39:21.403][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-03-21 04:39:21.405][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-03-21 04:39:21.407][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-03-21 04:39:21.409][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-03-21 04:39:21.411][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-03-21 04:39:21.414][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-03-21 04:39:21.416][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-03-21 04:39:21.418][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-03-21 04:39:21.420][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-03-21 04:39:21.422][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-03-21 04:39:21.425][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-03-21 04:39:21.427][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-03-21 04:39:21.429][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-03-21 04:39:21.431][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-03-21 04:39:21.433][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-03-21 04:39:21.435][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-03-21 04:39:21.438][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-03-21 04:39:21.440][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-03-21 04:39:21.442][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-03-21 04:39:21.444][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-03-21 04:39:21.447][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-03-21 04:39:21.449][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-03-21 04:39:21.451][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-03-21 04:39:21.454][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-03-21 04:39:21.456][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-03-21 04:39:21.458][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-03-21 04:39:21.461][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-03-21 04:39:21.463][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-03-21 04:39:21.465][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-03-21 04:39:21.468][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-03-21 04:39:21.470][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-03-21 04:39:21.472][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-03-21 04:39:21.475][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-03-21 04:39:21.477][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-03-21 04:39:21.479][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-03-21 04:39:21.482][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-03-21 04:39:21.484][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-03-21 04:39:21.487][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-03-21 04:39:21.489][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-03-21 04:39:21.491][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-03-21 04:39:21.493][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-03-21 04:39:21.495][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-03-21 04:39:21.497][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-03-21 04:39:21.499][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-03-21 04:39:21.501][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-03-21 04:39:21.503][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-03-21 04:39:21.505][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-03-21 04:39:21.507][initialize] This is biodb version 1.15.0.
biodb.DEBUG[2025-03-21 04:39:21.509][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-21 04:39:21.510][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:21.511][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:21.512][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:21.513][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[2025-03-21 04:39:21.515][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:21.516][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:21.517][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:21.518][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:21.520][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:21.521][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:21.522][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:21.524][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:21.525][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:21.526][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:21.527][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:21.528][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:21.530][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:21.531][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:21.532][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:21.534][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:21.535][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:21.536][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:21.537][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:21.539][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:21.540][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[2025-03-21 04:39:21.541][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:21.542][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:21.544][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:21.545][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:21.546][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:21.547][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:21.549][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:21.550][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:21.551][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:21.552][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:21.554][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:21.555][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:21.556][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:21.558][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:21.559][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:21.560][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:21.561][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:21.563][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:21.564][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:21.565][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:21.566][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:21.568][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:21.569][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:21.570][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:21.571][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:21.573][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:21.574][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:21.575][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[2025-03-21 04:39:21.576][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:21.578][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:21.579][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:21.580][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:21.581][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:21.583][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:21.584][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[2025-03-21 04:39:21.585][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:21.586][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:21.588][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:21.589][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:21.590][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:21.591][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:21.593][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[2025-03-21 04:39:21.594][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:21.595][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:21.596][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:21.605][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:21.606][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:21.607][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:21.609][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:21.610][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:21.611][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:21.612][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:21.613][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:21.614][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:21.616][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:21.617][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:21.618][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:21.619][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:21.620][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:21.621][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:21.623][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:21.624][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:21.625][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.DEBUG[2025-03-21 04:39:21.626][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:21.627][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:21.628][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:21.630][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:21.631][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:21.632][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:21.633][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:21.634][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:21.635][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:21.637][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:21.638][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:21.639][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:21.640][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:21.641][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[2025-03-21 04:39:21.643][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:21.644][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:21.645][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:21.646][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:21.647][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:21.648][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:21.650][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:21.651][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:21.652][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:21.653][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:21.654][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:21.655][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:21.657][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:21.658][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:21.659][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:21.660][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:21.661][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:21.662][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:21.664][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:21.665][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:21.666][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:21.668][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-devel_2025-02-19/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-03-21 04:39:21.670][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-03-21 04:39:21.673][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-21 04:39:21.674][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-03-21 04:39:21.675][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-21 04:39:21.677][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-21 04:39:21.678][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-21 04:39:21.679][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-21 04:39:21.681][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-03-21 04:39:21.682][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-03-21 04:39:21.683][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-03-21 04:39:21.685][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-21 04:39:21.686][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-21 04:39:21.687][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-03-21 04:39:21.689][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-21 04:39:21.690][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-03-21 04:39:21.690][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-03-21 04:39:21.690][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-03-21 04:39:21.690][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-03-21 04:39:21.690][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-03-21 04:39:21.690][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-03-21 04:39:21.690][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-03-21 04:39:21.690][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-03-21 04:39:21.690][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-03-21 04:39:21.690][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-03-21 04:39:21.690][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-03-21 04:39:21.692][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-03-21 04:39:21.693][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-21 04:39:21.693][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-21 04:39:21.693][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-21 04:39:21.694][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-03-21 04:39:21.696][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 04:39:21.697][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 04:39:21.698][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-21 04:39:21.699][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 04:39:21.701][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 04:39:21.702][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-21 04:39:21.703][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-03-21 04:39:21.703][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-03-21 04:39:21.705][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-21 04:39:21.706][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-21 04:39:21.707][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-03-21 04:39:21.708][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-03-21 04:39:21.708][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-03-21 04:39:21.710][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-03-21 04:39:21.712][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-21 04:39:21.715][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-03-21 04:39:21.716][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-03-21 04:39:21.719][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-03-21 04:39:21.721][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-03-21 04:39:21.725][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-03-21 04:39:21.727][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-03-21 04:39:21.728][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-03-21 04:39:21.730][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-03-21 04:39:21.732][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-21 04:39:21.733][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-21 04:39:21.735][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-03-21 04:39:21.736][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-03-21 04:39:21.738][biodb::testThat]
biodb.INFO [2025-03-21 04:39:21.739][biodb::testThat] Running test function test.chebi.wsGetLiteEntity (" Web service getLiteEntity works fine. ").
biodb.INFO [2025-03-21 04:39:21.741][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-21 04:39:21.742][biodb::testThat]
biodb.DEBUG[2025-03-21 04:39:21.746][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-03-21 04:39:21.751][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 04:39:21.753][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2025-03-21 04:39:21.755][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 04:39:21.756][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2025-03-21 04:39:21.761][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[2025-03-21 04:39:21.766][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 04:39:21.767][cch$loadFileContent] Trying to load 1 files from cache: [1]: "04c26672f8368e71348af4b34238160e".
biodb.TRACE[2025-03-21 04:39:21.769][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 04:39:21.772][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content".
biodb.INFO [2025-03-21 04:39:21.782][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-03-21 04:39:21.784][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-03-21 04:39:21.785][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-03-21 04:39:21.786][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-03-21 04:39:21.787][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:21.789][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:21.790][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:21.791][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:21.792][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:21.793][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-03-21 04:39:21.798][biodb::testContext]
biodb.INFO [2025-03-21 04:39:21.799][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-21 04:39:21.801][biodb::testContext] Test context - Non regression tests
biodb.INFO [2025-03-21 04:39:21.802][biodb::testContext] ********************************************************************************
biodb.INFO [2025-03-21 04:39:21.803][biodb::testContext]
biodb.INFO [2025-03-21 04:39:21.806][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.15.0.
biodb.DEBUG[2025-03-21 04:39:21.808][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-devel_2025-02-19/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-03-21 04:39:21.813][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-21 04:39:21.815][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-03-21 04:39:21.816][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-03-21 04:39:21.818][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:21.819][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:21.820][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:21.822][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-03-21 04:39:21.823][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-03-21 04:39:21.825][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:21.826][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:21.827][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:21.829][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-03-21 04:39:21.830][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-03-21 04:39:21.831][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:21.833][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:21.834][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:21.835][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-03-21 04:39:21.837][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-03-21 04:39:21.838][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-03-21 04:39:21.839][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:21.840][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:21.842][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.DEBUG[2025-03-21 04:39:21.843][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-03-21 04:39:21.845][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-03-21 04:39:21.846][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-03-21 04:39:21.847][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:21.856][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:21.857][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:21.858][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-03-21 04:39:21.860][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-03-21 04:39:21.861][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:21.862][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:21.863][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:21.865][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-03-21 04:39:21.866][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-03-21 04:39:21.868][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-03-21 04:39:21.869][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:21.870][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:21.871][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:21.873][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-03-21 04:39:21.874][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-03-21 04:39:21.875][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:21.876][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:21.878][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:21.879][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-03-21 04:39:21.880][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-03-21 04:39:21.882][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-03-21 04:39:21.883][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:21.884][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:21.885][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:21.887][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-03-21 04:39:21.888][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-03-21 04:39:21.889][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-03-21 04:39:21.891][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-03-21 04:39:21.892][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-03-21 04:39:21.894][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-03-21 04:39:21.895][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:21.896][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:21.897][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[2025-03-21 04:39:21.899][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-03-21 04:39:21.900][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-03-21 04:39:21.901][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:21.902][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:21.904][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:21.905][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-03-21 04:39:21.906][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-03-21 04:39:21.908][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:21.909][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:21.910][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.DEBUG[2025-03-21 04:39:21.911][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-03-21 04:39:21.913][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-03-21 04:39:21.914][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:21.915][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:21.916][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:21.918][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-03-21 04:39:21.919][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-03-21 04:39:21.920][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:21.921][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:21.922][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:21.924][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-03-21 04:39:21.925][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-03-21 04:39:21.926][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:21.928][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:21.929][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:21.930][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-03-21 04:39:21.931][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-03-21 04:39:21.936][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-03-21 04:39:21.937][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:21.939][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:21.940][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:21.941][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-03-21 04:39:21.942][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-03-21 04:39:21.944][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-03-21 04:39:21.945][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:21.946][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:21.947][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:21.949][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-03-21 04:39:21.951][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-21 04:39:21.953][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-03-21 04:39:21.954][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-21 04:39:21.955][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-21 04:39:21.957][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-21 04:39:21.958][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-21 04:39:21.960][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-21 04:39:21.961][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-21 04:39:21.962][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-21 04:39:21.964][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-21 04:39:21.965][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-21 04:39:21.967][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-03-21 04:39:21.968][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-21 04:39:21.969][self$setPropertyValue]
biodb.DEBUG[2025-03-21 04:39:21.971][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-21 04:39:21.972][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-21 04:39:21.972][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-21 04:39:21.972][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-21 04:39:21.972][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-21 04:39:21.972][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-21 04:39:21.973][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-21 04:39:21.975][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 04:39:21.976][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 04:39:21.977][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-21 04:39:21.979][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 04:39:21.980][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 04:39:21.981][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-21 04:39:21.982][self$setPropertyValue]
biodb.DEBUG[2025-03-21 04:39:21.984][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-21 04:39:21.985][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-21 04:39:21.986][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-21 04:39:21.988][self$setPropertyValue]
biodb.DEBUG[2025-03-21 04:39:21.989][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-03-21 04:39:21.992][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-21 04:39:21.993][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-03-21 04:39:21.994][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-21 04:39:21.996][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-21 04:39:21.997][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-21 04:39:21.998][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-21 04:39:22.000][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-21 04:39:22.001][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-21 04:39:22.002][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-21 04:39:22.004][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-21 04:39:22.005][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-21 04:39:22.007][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-03-21 04:39:22.008][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-21 04:39:22.009][self$setPropertyValue]
biodb.DEBUG[2025-03-21 04:39:22.011][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-21 04:39:22.012][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-21 04:39:22.012][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-21 04:39:22.012][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-21 04:39:22.012][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-03-21 04:39:22.012][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-03-21 04:39:22.013][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-21 04:39:22.015][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 04:39:22.016][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 04:39:22.017][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-21 04:39:22.019][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 04:39:22.020][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 04:39:22.021][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-21 04:39:22.023][self$setPropertyValue]
biodb.DEBUG[2025-03-21 04:39:22.024][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-21 04:39:22.026][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-21 04:39:22.027][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-21 04:39:22.028][self$setPropertyValue]
biodb.DEBUG[2025-03-21 04:39:22.030][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-03-21 04:39:22.033][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-21 04:39:22.034][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-03-21 04:39:22.036][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-21 04:39:22.037][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-21 04:39:22.039][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-21 04:39:22.040][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-21 04:39:22.042][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-21 04:39:22.043][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-21 04:39:22.044][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-03-21 04:39:22.046][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-21 04:39:22.047][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-21 04:39:22.049][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-03-21 04:39:22.050][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-21 04:39:22.051][self$setPropertyValue]
biodb.DEBUG[2025-03-21 04:39:22.053][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-21 04:39:22.054][self$setPropertyValue]
biodb.DEBUG[2025-03-21 04:39:22.055][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-21 04:39:22.057][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 04:39:22.058][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 04:39:22.059][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-21 04:39:22.061][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 04:39:22.062][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 04:39:22.063][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-21 04:39:22.065][self$setPropertyValue]
biodb.DEBUG[2025-03-21 04:39:22.066][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-21 04:39:22.067][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-21 04:39:22.068][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-21 04:39:22.070][self$setPropertyValue]
biodb.DEBUG[2025-03-21 04:39:22.071][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-03-21 04:39:22.074][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-03-21 04:39:22.075][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-03-21 04:39:22.077][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-21 04:39:22.078][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-21 04:39:22.079][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-21 04:39:22.080][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-21 04:39:22.082][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-03-21 04:39:22.083][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-03-21 04:39:22.084][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-03-21 04:39:22.086][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-21 04:39:22.087][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-03-21 04:39:22.088][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-03-21 04:39:22.090][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-21 04:39:22.091][self$setPropertyValue]
biodb.DEBUG[2025-03-21 04:39:22.099][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-03-21 04:39:22.101][self$setPropertyValue]
biodb.DEBUG[2025-03-21 04:39:22.102][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-03-21 04:39:22.103][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 04:39:22.104][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 04:39:22.106][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-21 04:39:22.107][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 04:39:22.108][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 04:39:22.110][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-21 04:39:22.111][self$setPropertyValue]
biodb.DEBUG[2025-03-21 04:39:22.112][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-21 04:39:22.114][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-21 04:39:22.115][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-03-21 04:39:22.116][self$setPropertyValue]
biodb.DEBUG[2025-03-21 04:39:22.118][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-21 04:39:22.119][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:22.120][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[2025-03-21 04:39:22.122][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:22.123][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:22.124][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:22.125][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:22.126][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:22.128][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:22.129][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:22.130][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:22.131][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:22.132][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:22.134][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:22.135][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:22.136][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:22.137][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:22.138][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:22.140][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:22.141][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:22.142][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:22.143][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:22.144][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:22.146][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:22.147][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:22.148][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:22.149][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:22.150][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[2025-03-21 04:39:22.152][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:22.153][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:22.154][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:22.155][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:22.156][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[2025-03-21 04:39:22.158][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:22.159][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:22.160][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:22.161][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:22.162][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:22.163][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:22.165][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:22.166][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:22.167][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:22.168][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:22.169][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:22.171][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:22.172][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:22.173][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:22.174][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:22.175][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:22.177][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:22.178][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:22.179][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:22.180][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:22.181][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:22.182][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:22.184][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:22.185][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:22.186][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:22.187][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:22.189][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:22.190][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:22.191][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:22.192][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[2025-03-21 04:39:22.193][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:22.195][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:22.196][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:22.197][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:22.198][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:22.199][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:22.200][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:22.202][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:22.203][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:22.204][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:22.205][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:22.206][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:22.208][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:22.209][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:22.210][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:22.211][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:22.212][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:22.214][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:22.215][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:22.216][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[2025-03-21 04:39:22.217][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:22.218][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:22.220][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:22.221][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:22.222][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.DEBUG[2025-03-21 04:39:22.223][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-03-21 04:39:22.225][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-03-21 04:39:22.227][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-03-21 04:39:22.229][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-03-21 04:39:22.231][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-03-21 04:39:22.233][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-03-21 04:39:22.235][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-03-21 04:39:22.237][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-03-21 04:39:22.238][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-03-21 04:39:22.240][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-03-21 04:39:22.242][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-21 04:39:22.244][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-03-21 04:39:22.246][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-03-21 04:39:22.248][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-03-21 04:39:22.250][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-03-21 04:39:22.252][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-03-21 04:39:22.254][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-03-21 04:39:22.255][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-03-21 04:39:22.257][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-03-21 04:39:22.259][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-03-21 04:39:22.261][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-03-21 04:39:22.263][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-03-21 04:39:22.265][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-03-21 04:39:22.267][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-03-21 04:39:22.269][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-03-21 04:39:22.271][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-03-21 04:39:22.273][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-03-21 04:39:22.275][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-03-21 04:39:22.277][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-03-21 04:39:22.279][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-03-21 04:39:22.281][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-03-21 04:39:22.283][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-03-21 04:39:22.285][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-03-21 04:39:22.287][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-03-21 04:39:22.289][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-03-21 04:39:22.291][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-03-21 04:39:22.292][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-03-21 04:39:22.294][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-03-21 04:39:22.296][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-03-21 04:39:22.298][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-03-21 04:39:22.300][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-03-21 04:39:22.302][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-03-21 04:39:22.304][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-03-21 04:39:22.306][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-03-21 04:39:22.308][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-03-21 04:39:22.310][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-03-21 04:39:22.312][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-03-21 04:39:22.314][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-03-21 04:39:22.316][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-03-21 04:39:22.318][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-03-21 04:39:22.320][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-03-21 04:39:22.322][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-03-21 04:39:22.324][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-03-21 04:39:22.326][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-03-21 04:39:22.335][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-03-21 04:39:22.337][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-03-21 04:39:22.339][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-03-21 04:39:22.341][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-03-21 04:39:22.343][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-03-21 04:39:22.345][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-03-21 04:39:22.347][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-03-21 04:39:22.349][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-03-21 04:39:22.351][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-03-21 04:39:22.353][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-03-21 04:39:22.355][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-03-21 04:39:22.357][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-03-21 04:39:22.359][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-03-21 04:39:22.361][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-03-21 04:39:22.363][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-03-21 04:39:22.365][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-03-21 04:39:22.367][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-03-21 04:39:22.369][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-03-21 04:39:22.371][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-03-21 04:39:22.373][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-03-21 04:39:22.375][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-03-21 04:39:22.377][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-03-21 04:39:22.379][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-03-21 04:39:22.381][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-03-21 04:39:22.383][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-03-21 04:39:22.385][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-03-21 04:39:22.387][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-03-21 04:39:22.389][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-03-21 04:39:22.391][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-03-21 04:39:22.393][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-03-21 04:39:22.395][initialize] This is biodb version 1.15.0.
biodb.DEBUG[2025-03-21 04:39:22.396][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-03-21 04:39:22.398][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:22.399][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:22.400][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:22.401][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.DEBUG[2025-03-21 04:39:22.403][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:22.404][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:22.405][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:22.406][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:22.407][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:22.409][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:22.410][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:22.411][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:22.412][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:22.414][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:22.415][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:22.416][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:22.417][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:22.419][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:22.420][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:22.421][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:22.422][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:22.424][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:22.425][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:22.426][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:22.427][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:22.429][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:22.430][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:22.431][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:22.432][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:22.434][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:22.435][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:22.436][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:22.437][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:22.439][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:22.440][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:22.441][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:22.442][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:22.443][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:22.445][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:22.446][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:22.447][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:22.448][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:22.450][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:22.451][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:22.452][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:22.453][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:22.455][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:22.456][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:22.457][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:22.458][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:22.459][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:22.461][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:22.462][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:22.463][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:22.464][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:22.466][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:22.467][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:22.468][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:22.469][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:22.471][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:22.472][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:22.473][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:22.474][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:22.475][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:22.477][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:22.478][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:22.479][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:22.481][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:22.482][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:22.483][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:22.484][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:22.485][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:22.487][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:22.488][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[2025-03-21 04:39:22.489][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:22.490][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:22.492][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:22.493][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:22.494][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:22.495][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:22.497][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.DEBUG[2025-03-21 04:39:22.498][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:22.499][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:22.500][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:22.502][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:22.503][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:22.504][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:22.505][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:22.507][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:22.508][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:22.509][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:22.510][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:22.511][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:22.513][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:22.514][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:22.515][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:22.517][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:22.518][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:22.519][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:22.520][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:22.522][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:22.523][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:22.524][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:22.525][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:22.527][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:22.528][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:22.529][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:22.530][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:22.532][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:22.533][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:22.534][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:22.535][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:22.537][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:22.538][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:22.539][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:22.540][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[2025-03-21 04:39:22.542][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-03-21 04:39:22.543][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:22.544][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:22.546][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:22.547][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:22.548][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:22.549][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-03-21 04:39:22.552][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-devel_2025-02-19/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-03-21 04:39:22.553][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-03-21 04:39:22.556][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-03-21 04:39:22.558][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-03-21 04:39:22.559][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-03-21 04:39:22.560][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-03-21 04:39:22.562][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-03-21 04:39:22.563][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-03-21 04:39:22.564][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-03-21 04:39:22.566][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-03-21 04:39:22.567][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-03-21 04:39:22.576][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-03-21 04:39:22.578][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-03-21 04:39:22.579][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-03-21 04:39:22.580][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-03-21 04:39:22.582][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-03-21 04:39:22.582][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-03-21 04:39:22.582][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-03-21 04:39:22.582][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-03-21 04:39:22.582][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-03-21 04:39:22.582][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-03-21 04:39:22.582][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-03-21 04:39:22.582][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-03-21 04:39:22.582][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-03-21 04:39:22.582][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-03-21 04:39:22.582][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-03-21 04:39:22.583][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-03-21 04:39:22.585][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-03-21 04:39:22.585][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-03-21 04:39:22.585][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-03-21 04:39:22.586][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-03-21 04:39:22.588][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 04:39:22.589][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 04:39:22.590][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-03-21 04:39:22.592][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-03-21 04:39:22.593][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-03-21 04:39:22.594][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-03-21 04:39:22.596][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-03-21 04:39:22.596][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-03-21 04:39:22.597][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-03-21 04:39:22.598][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-03-21 04:39:22.600][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-03-21 04:39:22.601][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-03-21 04:39:22.601][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-03-21 04:39:22.603][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-03-21 04:39:22.606][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-03-21 04:39:22.608][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-03-21 04:39:22.610][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-03-21 04:39:22.612][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-03-21 04:39:22.615][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-03-21 04:39:22.619][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-03-21 04:39:22.621][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-03-21 04:39:22.623][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-03-21 04:39:22.625][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-03-21 04:39:22.627][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-21 04:39:22.628][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-03-21 04:39:22.630][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-03-21 04:39:22.631][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-03-21 04:39:22.633][biodb::testThat]
biodb.INFO [2025-03-21 04:39:22.635][biodb::testThat] Running test function test.chebi.encoding.issue.in.xml (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2025-03-21 04:39:22.636][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-03-21 04:39:22.637][biodb::testThat]
biodb.DEBUG[2025-03-21 04:39:22.641][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-03-21 04:39:22.646][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 04:39:22.648][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2025-03-21 04:39:22.650][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 04:39:22.652][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2025-03-21 04:39:22.656][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[2025-03-21 04:39:22.660][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-03-21 04:39:22.662][cch$loadFileContent] Trying to load 1 files from cache: [1]: "04c26672f8368e71348af4b34238160e".
biodb.TRACE[2025-03-21 04:39:22.664][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 04:39:22.666][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content".
biodb.DEBUG[2025-03-21 04:39:22.672][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2025-03-21 04:39:22.673][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-03-21 04:39:22.675][cch$loadFileContent] Trying to load 1 files from cache: [1]: "2571".
biodb.TRACE[2025-03-21 04:39:22.677][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-03-21 04:39:22.681][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml".
biodb.DEBUG[2025-03-21 04:39:22.683][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-03-21 04:39:22.684][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-03-21 04:39:22.686][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-03-21 04:39:22.688][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-03-21 04:39:22.689][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:22.691][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:22.697][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:22.698][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:22.699][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:22.700][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-03-21 04:39:22.706][ef$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:22.707][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:22.709][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:22.710][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:22.712][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:22.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:22.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:22.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:22.718][ef$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 04:39:22.719][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 04:39:22.720][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:22.721][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:22.724][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-03-21 04:39:22.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-03-21 04:39:22.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:22.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:22.729][ef$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 04:39:22.731][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 04:39:22.732][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:22.733][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:22.736][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-03-21 04:39:22.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-03-21 04:39:22.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:22.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:22.741][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-03-21 04:39:22.743][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-03-21 04:39:22.744][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:22.745][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:22.748][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-03-21 04:39:22.749][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-03-21 04:39:22.750][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:22.752][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:22.754][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:39:22.755][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:39:22.756][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:22.758][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:22.760][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:39:22.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-03-21 04:39:22.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:22.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:22.765][ef$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 04:39:22.767][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:22.768][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:22.769][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:22.772][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-03-21 04:39:22.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-03-21 04:39:22.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:22.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:22.777][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:22.779][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:22.780][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:22.781][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:22.784][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:22.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-03-21 04:39:22.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:22.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:22.789][ef$get] Asked field names are: name.
biodb.TRACE[2025-03-21 04:39:22.791][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 04:39:22.792][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:22.793][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:22.796][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-03-21 04:39:22.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-03-21 04:39:22.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:22.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:22.802][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 04:39:22.803][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 04:39:22.805][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:22.806][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:22.808][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-03-21 04:39:22.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-03-21 04:39:22.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:22.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:22.814][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 04:39:22.815][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 04:39:22.817][ef$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:22.818][ef$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:22.820][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-03-21 04:39:22.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-03-21 04:39:22.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:22.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:22.826][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:22.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:22.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:22.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:22.838][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:22.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:22.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:22.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:22.844][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:22.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:22.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:22.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:22.849][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-03-21 04:39:22.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-03-21 04:39:22.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:22.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:22.855][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:22.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:22.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:22.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:22.860][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:22.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:22.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:22.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:22.865][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:22.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:22.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:22.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:22.870][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:22.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:22.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:22.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:22.875][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:22.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:22.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:22.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-03-21 04:39:22.880][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-03-21 04:39:22.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-03-21 04:39:22.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-03-21 04:39:22.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-03-21 04:39:22.886][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2025-03-21 04:39:22.890][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-03-21 04:39:22.892][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-03-21 04:39:22.893][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-03-21 04:39:22.894][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-03-21 04:39:22.895][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-03-21 04:39:22.897][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-03-21 04:39:22.898][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-03-21 04:39:22.899][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-03-21 04:39:22.900][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-03-21 04:39:22.901][FUN] Functions in observer 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 367 ]
>
> proc.time()
user system elapsed
23.306 0.781 41.115
biodbChebi.Rcheck/biodbChebi-Ex.timings
| name | user | system | elapsed | |
| ChebiConn | 1.181 | 0.072 | 3.244 | |
| ChebiEntry | 0.210 | 0.000 | 0.211 | |