Pierrick Roger
| Snapshot Date: 2025-02-03 13:40 -0500 (Mon, 03 Feb 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 -0500 (Tue, 29 Oct 2024) |
| Back to Multiple platform build/check report for BioC 3.21: simplified long |
|
This page was generated on 2025-02-04 11:44 -0500 (Tue, 04 Feb 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | R Under development (unstable) (2025-01-20 r87609) -- "Unsuffered Consequences" | 4716 |
| palomino7 | Windows Server 2022 Datacenter | x64 | R Under development (unstable) (2025-01-21 r87610 ucrt) -- "Unsuffered Consequences" | 4478 |
| lconway | macOS 12.7.1 Monterey | x86_64 | R Under development (unstable) (2025-01-22 r87618) -- "Unsuffered Consequences" | 4489 |
| kjohnson3 | macOS 13.7.1 Ventura | arm64 | R Under development (unstable) (2025-01-20 r87609) -- "Unsuffered Consequences" | 4442 |
| Click on any hostname to see more info about the system (e.g. compilers) (*) as reported by 'uname -p', except on Windows and Mac OS X | ||||
| Package 202/2295 | 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 | | ||||||||
|
To the developers/maintainers of the biodbChebi package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/biodbChebi.git to reflect on this report. See Troubleshooting Build Report for more information. - Use the following Renviron settings to reproduce errors and warnings. - If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information. |
| Package: biodbChebi |
| Version: 1.13.0 |
| Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings biodbChebi_1.13.0.tar.gz |
| StartedAt: 2025-02-03 18:52:54 -0500 (Mon, 03 Feb 2025) |
| EndedAt: 2025-02-03 18:53:27 -0500 (Mon, 03 Feb 2025) |
| EllapsedTime: 32.4 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: biodbChebi.Rcheck |
| Warnings: 0 |
##############################################################################
##############################################################################
###
### Running command:
###
### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings biodbChebi_1.13.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/Users/biocbuild/bbs-3.21-bioc/meat/biodbChebi.Rcheck’
* using R Under development (unstable) (2025-01-20 r87609)
* using platform: aarch64-apple-darwin20
* R was compiled by
Apple clang version 14.0.0 (clang-1400.0.29.202)
GNU Fortran (GCC) 14.2.0
* running under: macOS Ventura 13.7.1
* 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 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: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL biodbChebi ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/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) (2025-01-20 r87609) -- "Unsuffered Consequences"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: aarch64-apple-darwin20
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 [2025-02-03 18:53:15.243][biodb::testContext]
biodb.INFO [2025-02-03 18:53:15.244][biodb::testContext] ********************************************************************************
biodb.INFO [2025-02-03 18:53:15.245][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-02-03 18:53:15.245][biodb::testContext] ********************************************************************************
biodb.INFO [2025-02-03 18:53:15.245][biodb::testContext]
biodb.INFO [2025-02-03 18:53:15.248][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.15.0.
biodb.DEBUG[2025-02-03 18:53:15.249][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-02-03 18:53:15.252][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-02-03 18:53:15.252][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-02-03 18:53:15.252][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-02-03 18:53:15.253][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:15.253][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:15.253][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:15.254][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-02-03 18:53:15.260][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-02-03 18:53:15.260][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:15.261][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:15.261][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:15.261][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-02-03 18:53:15.262][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-02-03 18:53:15.262][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:15.262][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:15.262][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:15.263][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-02-03 18:53:15.263][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-02-03 18:53:15.263][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-02-03 18:53:15.264][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:15.264][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:15.264][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[2025-02-03 18:53:15.264][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-02-03 18:53:15.265][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-02-03 18:53:15.265][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-02-03 18:53:15.265][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:15.265][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:15.266][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:15.266][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-02-03 18:53:15.266][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-02-03 18:53:15.267][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:15.267][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:15.267][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:15.268][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-02-03 18:53:15.268][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-02-03 18:53:15.268][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-02-03 18:53:15.268][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:15.269][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:15.269][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:15.269][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-02-03 18:53:15.270][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-02-03 18:53:15.270][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:15.276][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:15.277][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[2025-02-03 18:53:15.277][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-02-03 18:53:15.277][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-02-03 18:53:15.278][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-02-03 18:53:15.278][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:15.278][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:15.278][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:15.279][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-02-03 18:53:15.279][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-02-03 18:53:15.279][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-02-03 18:53:15.280][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-02-03 18:53:15.280][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-02-03 18:53:15.280][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-02-03 18:53:15.280][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:15.280][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:15.281][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.DEBUG[2025-02-03 18:53:15.281][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-02-03 18:53:15.281][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-02-03 18:53:15.282][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:15.282][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:15.282][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:15.282][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-02-03 18:53:15.283][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-02-03 18:53:15.283][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:15.283][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:15.283][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[2025-02-03 18:53:15.283][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-02-03 18:53:15.284][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-02-03 18:53:15.284][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:15.284][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:15.284][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:15.285][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-02-03 18:53:15.285][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-02-03 18:53:15.285][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:15.285][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:15.286][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[2025-02-03 18:53:15.286][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-02-03 18:53:15.286][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-02-03 18:53:15.286][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:15.287][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:15.287][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:15.287][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-02-03 18:53:15.287][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-02-03 18:53:15.294][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-02-03 18:53:15.295][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:15.295][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:15.295][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:15.296][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-02-03 18:53:15.296][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-02-03 18:53:15.296][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-02-03 18:53:15.296][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:15.297][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:15.297][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:15.299][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-02-03 18:53:15.310][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-02-03 18:53:15.315][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-02-03 18:53:15.315][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:15.316][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-03 18:53:15.316][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:15.316][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-03 18:53:15.316][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-03 18:53:15.317][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-03 18:53:15.317][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-02-03 18:53:15.317][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-03 18:53:15.317][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:15.318][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-02-03 18:53:15.318][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-03 18:53:15.318][self$setPropertyValue]
biodb.DEBUG[2025-02-03 18:53:15.318][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:15.319][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-02-03 18:53:15.319][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-02-03 18:53:15.319][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-02-03 18:53:15.319][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-02-03 18:53:15.319][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-02-03 18:53:15.319][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-03 18:53:15.319][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 18:53:15.319][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 18:53:15.320][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-03 18:53:15.320][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 18:53:15.320][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 18:53:15.320][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-03 18:53:15.321][self$setPropertyValue]
biodb.DEBUG[2025-02-03 18:53:15.321][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-03 18:53:15.321][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-03 18:53:15.321][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-03 18:53:15.322][self$setPropertyValue]
biodb.DEBUG[2025-02-03 18:53:15.322][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-02-03 18:53:15.323][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-02-03 18:53:15.323][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-02-03 18:53:15.323][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:15.323][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-03 18:53:15.324][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:15.324][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-03 18:53:15.324][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-03 18:53:15.324][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-03 18:53:15.325][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-02-03 18:53:15.325][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-03 18:53:15.325][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:15.325][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-02-03 18:53:15.326][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-03 18:53:15.326][self$setPropertyValue]
biodb.DEBUG[2025-02-03 18:53:15.326][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:15.327][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-02-03 18:53:15.327][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-02-03 18:53:15.327][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-02-03 18:53:15.327][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-02-03 18:53:15.327][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-02-03 18:53:15.327][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-03 18:53:15.327][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 18:53:15.327][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 18:53:15.327][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-03 18:53:15.328][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 18:53:15.328][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 18:53:15.328][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-03 18:53:15.329][self$setPropertyValue]
biodb.DEBUG[2025-02-03 18:53:15.329][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-03 18:53:15.329][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-03 18:53:15.329][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-03 18:53:15.330][self$setPropertyValue]
biodb.DEBUG[2025-02-03 18:53:15.330][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-02-03 18:53:15.331][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:15.331][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-02-03 18:53:15.331][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:15.331][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-03 18:53:15.332][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:15.332][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-03 18:53:15.332][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-03 18:53:15.333][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-03 18:53:15.333][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-02-03 18:53:15.333][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-03 18:53:15.333][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-02-03 18:53:15.334][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-02-03 18:53:15.334][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-03 18:53:15.334][self$setPropertyValue]
biodb.DEBUG[2025-02-03 18:53:15.334][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:15.335][self$setPropertyValue]
biodb.DEBUG[2025-02-03 18:53:15.335][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-03 18:53:15.335][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 18:53:15.336][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 18:53:15.336][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-03 18:53:15.336][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 18:53:15.336][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 18:53:15.337][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-03 18:53:15.337][self$setPropertyValue]
biodb.DEBUG[2025-02-03 18:53:15.337][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-03 18:53:15.337][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-03 18:53:15.338][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-03 18:53:15.338][self$setPropertyValue]
biodb.DEBUG[2025-02-03 18:53:15.338][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-02-03 18:53:15.339][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:15.339][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-02-03 18:53:15.339][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:15.340][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-03 18:53:15.340][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:15.340][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-03 18:53:15.341][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-03 18:53:15.341][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-03 18:53:15.341][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-02-03 18:53:15.341][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-03 18:53:15.342][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-02-03 18:53:15.342][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-02-03 18:53:15.342][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-03 18:53:15.343][self$setPropertyValue]
biodb.DEBUG[2025-02-03 18:53:15.343][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:15.343][self$setPropertyValue]
biodb.DEBUG[2025-02-03 18:53:15.343][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-03 18:53:15.346][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 18:53:15.347][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 18:53:15.347][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-03 18:53:15.347][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 18:53:15.347][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 18:53:15.348][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-03 18:53:15.348][self$setPropertyValue]
biodb.DEBUG[2025-02-03 18:53:15.348][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-03 18:53:15.348][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-03 18:53:15.348][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-03 18:53:15.349][self$setPropertyValue]
biodb.DEBUG[2025-02-03 18:53:15.350][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-02-03 18:53:15.351][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:15.351][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[2025-02-03 18:53:15.351][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:15.351][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:15.351][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:15.352][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:15.352][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.DEBUG[2025-02-03 18:53:15.352][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:15.352][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:15.353][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:15.353][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:15.353][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[2025-02-03 18:53:15.353][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:15.353][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:15.354][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:15.354][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:15.354][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.DEBUG[2025-02-03 18:53:15.354][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:15.355][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:15.355][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:15.355][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:15.355][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:15.355][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:15.356][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:15.356][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:15.356][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:15.356][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:15.357][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:15.357][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:15.357][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:15.357][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:15.358][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:15.358][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:15.358][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:15.358][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:15.358][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:15.359][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:15.359][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:15.359][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:15.359][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:15.359][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:15.360][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:15.360][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:15.360][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:15.360][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:15.361][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:15.361][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[2025-02-03 18:53:15.361][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:15.361][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:15.361][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:15.362][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:15.362][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:15.362][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:15.362][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:15.363][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:15.363][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:15.363][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:15.363][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:15.363][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:15.364][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:15.364][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:15.364][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[2025-02-03 18:53:15.364][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:15.364][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:15.365][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:15.365][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:15.365][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:15.365][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:15.366][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:15.366][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:15.366][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:15.366][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:15.366][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:15.367][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:15.367][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:15.367][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:15.367][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:15.368][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:15.368][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:15.368][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:15.368][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:15.368][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:15.369][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:15.369][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:15.369][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:15.369][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:15.369][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:15.370][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-02-03 18:53:15.372][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-02-03 18:53:15.372][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-02-03 18:53:15.372][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-02-03 18:53:15.373][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-02-03 18:53:15.373][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-02-03 18:53:15.373][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-02-03 18:53:15.374][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-02-03 18:53:15.374][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-02-03 18:53:15.375][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-02-03 18:53:15.375][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-02-03 18:53:15.375][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-02-03 18:53:15.376][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-02-03 18:53:15.376][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-02-03 18:53:15.376][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-02-03 18:53:15.377][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-02-03 18:53:15.377][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-02-03 18:53:15.377][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-02-03 18:53:15.378][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-02-03 18:53:15.378][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-02-03 18:53:15.378][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-02-03 18:53:15.379][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-02-03 18:53:15.379][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-02-03 18:53:15.379][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-02-03 18:53:15.380][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-02-03 18:53:15.380][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-02-03 18:53:15.381][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-02-03 18:53:15.381][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-02-03 18:53:15.381][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-02-03 18:53:15.382][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-02-03 18:53:15.382][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-02-03 18:53:15.382][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-02-03 18:53:15.383][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-02-03 18:53:15.383][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-02-03 18:53:15.383][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-02-03 18:53:15.384][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-02-03 18:53:15.384][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-02-03 18:53:15.384][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-02-03 18:53:15.385][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-02-03 18:53:15.385][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-02-03 18:53:15.385][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-02-03 18:53:15.386][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-02-03 18:53:15.386][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-02-03 18:53:15.387][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-02-03 18:53:15.387][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-02-03 18:53:15.387][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-02-03 18:53:15.388][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-02-03 18:53:15.388][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-02-03 18:53:15.388][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-02-03 18:53:15.389][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-02-03 18:53:15.389][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-02-03 18:53:15.389][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-02-03 18:53:15.390][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-02-03 18:53:15.390][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-02-03 18:53:15.390][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-02-03 18:53:15.391][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-02-03 18:53:15.391][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-02-03 18:53:15.391][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-02-03 18:53:15.392][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-02-03 18:53:15.392][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-02-03 18:53:15.393][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-02-03 18:53:15.393][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-02-03 18:53:15.393][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-02-03 18:53:15.394][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-02-03 18:53:15.394][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-02-03 18:53:15.394][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-02-03 18:53:15.395][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-02-03 18:53:15.395][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-02-03 18:53:15.395][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-02-03 18:53:15.396][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-02-03 18:53:15.396][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-02-03 18:53:15.396][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-02-03 18:53:15.397][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-02-03 18:53:15.397][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-02-03 18:53:15.397][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-02-03 18:53:15.398][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-02-03 18:53:15.398][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-02-03 18:53:15.399][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-02-03 18:53:15.399][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-02-03 18:53:15.399][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-02-03 18:53:15.400][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-02-03 18:53:15.400][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-02-03 18:53:15.403][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-02-03 18:53:15.405][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-02-03 18:53:15.405][initialize] This is biodb version 1.15.0.
biodb.DEBUG[2025-02-03 18:53:15.407][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-02-03 18:53:15.407][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:15.407][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:15.407][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:15.408][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:15.409][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:15.409][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:15.410][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:15.410][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:15.410][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:15.410][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:15.410][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[2025-02-03 18:53:15.411][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:15.411][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:15.411][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:15.411][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:15.412][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:15.412][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:15.412][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[2025-02-03 18:53:15.412][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:15.412][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:15.413][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:15.413][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:15.413][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:15.413][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:15.414][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:15.414][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:15.414][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:15.414][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:15.414][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:15.415][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:15.415][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:15.415][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.DEBUG[2025-02-03 18:53:15.415][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:15.415][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:15.416][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:15.416][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:15.416][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:15.416][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:15.417][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.DEBUG[2025-02-03 18:53:15.417][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:15.417][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:15.417][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:15.417][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:15.418][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:15.418][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:15.418][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:15.418][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:15.419][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:15.419][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:15.419][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:15.419][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:15.419][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:15.420][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:15.420][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:15.420][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:15.420][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:15.420][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:15.421][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:15.421][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:15.421][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:15.421][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:15.421][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:15.422][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:15.422][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:15.422][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:15.422][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:15.423][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:15.423][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:15.423][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:15.423][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:15.423][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:15.424][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:15.424][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:15.424][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:15.424][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:15.425][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:15.425][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:15.425][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:15.425][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:15.425][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:15.426][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:15.426][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:15.426][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:15.426][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:15.426][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:15.427][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:15.427][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:15.427][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[2025-02-03 18:53:15.427][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:15.428][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:15.428][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:15.428][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:15.428][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:15.428][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:15.429][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:15.429][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:15.429][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:15.429][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:15.429][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:15.430][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:15.430][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:15.430][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[2025-02-03 18:53:15.430][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:15.431][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:15.431][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:15.431][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:15.431][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:15.431][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:15.432][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:15.432][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:15.432][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:15.432][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:15.432][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:15.433][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:15.433][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:15.433][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:15.433][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:15.434][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:15.434][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:15.434][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:15.434][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:15.434][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:15.435][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:15.435][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-02-03 18:53:15.438][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-02-03 18:53:15.439][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-02-03 18:53:15.439][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-02-03 18:53:15.440][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:15.440][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-03 18:53:15.440][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:15.440][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-03 18:53:15.441][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:15.441][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-02-03 18:53:15.441][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-02-03 18:53:15.441][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-03 18:53:15.442][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:15.442][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-02-03 18:53:15.442][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-03 18:53:15.442][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-02-03 18:53:15.442][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-02-03 18:53:15.442][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-02-03 18:53:15.442][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-02-03 18:53:15.442][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-02-03 18:53:15.442][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-02-03 18:53:15.442][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-02-03 18:53:15.442][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-02-03 18:53:15.442][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-02-03 18:53:15.442][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-02-03 18:53:15.442][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-02-03 18:53:15.443][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-02-03 18:53:15.443][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-02-03 18:53:15.443][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-02-03 18:53:15.443][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-02-03 18:53:15.443][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-02-03 18:53:15.443][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 18:53:15.444][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 18:53:15.444][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-03 18:53:15.444][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 18:53:15.444][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 18:53:15.445][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-03 18:53:15.445][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-02-03 18:53:15.445][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-02-03 18:53:15.445][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-03 18:53:15.445][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-03 18:53:15.445][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:15.446][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-02-03 18:53:15.446][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-02-03 18:53:15.447][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-02-03 18:53:15.448][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-02-03 18:53:15.448][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-02-03 18:53:15.449][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-02-03 18:53:15.449][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-02-03 18:53:15.450][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-02-03 18:53:15.459][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-02-03 18:53:15.459][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-02-03 18:53:15.461][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-02-03 18:53:15.462][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-02-03 18:53:15.469][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-02-03 18:53:15.470][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-02-03 18:53:15.470][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-02-03 18:53:15.470][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-02-03 18:53:15.474][biodb::testThat]
biodb.INFO [2025-02-03 18:53:15.474][biodb::testThat] Running test function test.entry.fields (" Entry fields have a correct value ").
biodb.INFO [2025-02-03 18:53:15.475][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-03 18:53:15.475][biodb::testThat]
biodb.TRACE[2025-02-03 18:53:15.477][loadFileContents] Loaded 1 files from cache: [1]: "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2025-02-03 18:53:15.477][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-03 18:53:15.479][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-03 18:53:15.482][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:15.483][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:15.483][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:15.489][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:15.489][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:15.490][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:15.490][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:15.494][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:15.495][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:15.495][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.495][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.496][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:15.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:15.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.501][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 18:53:15.501][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 18:53:15.501][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.501][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.510][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 18:53:15.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 18:53:15.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.511][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 18:53:15.512][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 18:53:15.512][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.512][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.512][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 18:53:15.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 18:53:15.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.514][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 18:53:15.514][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 18:53:15.514][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.514][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.515][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 18:53:15.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 18:53:15.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.516][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 18:53:15.516][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 18:53:15.516][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.517][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.517][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 18:53:15.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 18:53:15.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.518][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:15.518][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:15.519][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.519][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.519][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:15.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:15.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.520][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 18:53:15.520][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:15.521][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.521][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.521][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 18:53:15.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:15.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.522][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:15.523][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:15.523][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.523][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.523][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:15.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:15.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.524][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-03 18:53:15.525][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 18:53:15.525][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.525][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.526][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 18:53:15.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 18:53:15.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.527][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 18:53:15.527][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 18:53:15.527][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.527][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.528][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 18:53:15.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 18:53:15.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.529][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 18:53:15.529][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 18:53:15.529][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.529][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.530][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 18:53:15.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 18:53:15.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.531][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:15.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:15.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.532][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:15.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:15.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.533][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:15.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:15.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.550][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:15.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:15.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.551][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:15.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:15.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.552][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:15.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:15.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.554][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:15.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:15.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.565][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:15.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:15.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.567][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:15.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:15.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.568][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:15.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:15.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:15.569][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2025-02-03 18:53:15.570][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 18:53:15.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 18:53:15.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.571][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 18:53:15.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 18:53:15.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.579][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 18:53:15.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 18:53:15.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.580][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 18:53:15.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 18:53:15.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.581][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:15.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:15.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.582][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:15.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:15.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.583][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-02-03 18:53:15.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-02-03 18:53:15.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.584][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-02-03 18:53:15.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-02-03 18:53:15.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.586][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-02-03 18:53:15.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-02-03 18:53:15.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.587][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-02-03 18:53:15.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-02-03 18:53:15.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.594][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:15.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:15.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.602][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:15.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:15.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.605][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:15.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:15.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.606][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:15.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:15.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.607][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:15.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:15.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.609][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:15.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:15.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.610][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:15.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:15.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.611][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:15.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:15.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.612][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:15.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:15.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.613][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:15.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:15.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.614][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:15.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:15.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.618][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:15.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:15.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.620][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:15.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:15.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.621][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:15.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:15.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.622][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:15.622][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:15.622][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.622][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.623][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:15.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:15.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.627][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:15.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:15.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.628][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:15.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:15.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.629][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:15.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:15.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.630][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:15.630][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:15.630][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.631][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.631][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:15.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:15.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.635][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 18:53:15.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 18:53:15.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.636][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 18:53:15.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 18:53:15.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.637][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 18:53:15.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 18:53:15.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.638][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-03 18:53:15.638][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 18:53:15.639][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.639][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.639][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 18:53:15.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 18:53:15.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.643][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 18:53:15.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 18:53:15.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.644][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 18:53:15.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 18:53:15.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.645][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 18:53:15.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 18:53:15.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.646][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 18:53:15.646][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 18:53:15.647][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.647][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.647][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 18:53:15.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 18:53:15.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.651][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:15.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:15.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.652][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:15.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:15.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.653][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:15.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:15.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.654][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:15.655][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:15.658][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.658][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.658][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:15.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:15.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.662][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:15.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:15.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.664][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:15.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:15.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.665][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:15.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:15.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.666][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:15.666][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:15.666][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.667][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.667][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:15.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:15.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.671][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 18:53:15.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 18:53:15.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.672][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 18:53:15.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 18:53:15.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.673][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 18:53:15.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 18:53:15.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.674][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 18:53:15.675][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 18:53:15.675][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.675][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.675][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 18:53:15.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 18:53:15.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.679][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-02-03 18:53:15.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 18:53:15.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.680][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-02-03 18:53:15.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 18:53:15.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.682][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-02-03 18:53:15.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 18:53:15.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.683][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-02-03 18:53:15.683][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 18:53:15.683][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.683][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.684][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-02-03 18:53:15.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 18:53:15.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.687][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:15.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:15.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.689][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:15.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:15.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.690][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:15.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:15.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.691][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:15.692][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:15.692][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.692][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.693][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:15.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:15.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.697][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 18:53:15.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 18:53:15.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.698][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 18:53:15.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 18:53:15.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.699][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 18:53:15.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 18:53:15.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.700][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 18:53:15.700][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 18:53:15.701][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.701][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.701][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 18:53:15.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 18:53:15.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.705][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 18:53:15.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 18:53:15.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.706][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 18:53:15.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 18:53:15.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.707][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 18:53:15.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 18:53:15.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.708][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 18:53:15.708][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 18:53:15.709][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.709][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.709][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 18:53:15.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 18:53:15.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.716][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 18:53:15.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 18:53:15.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.717][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 18:53:15.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 18:53:15.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.718][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 18:53:15.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 18:53:15.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.719][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 18:53:15.719][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 18:53:15.719][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.720][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.720][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 18:53:15.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 18:53:15.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.725][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:15.725][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:15.725][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.726][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.727][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 18:53:15.727][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 18:53:15.728][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.728][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.729][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 18:53:15.730][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 18:53:15.730][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.730][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.732][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 18:53:15.732][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 18:53:15.732][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.733][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.734][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 18:53:15.734][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 18:53:15.735][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.735][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.737][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:15.737][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:15.737][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.737][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.739][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:15.739][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:15.742][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.742][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.745][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:15.745][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:15.745][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.746][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.749][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-02-03 18:53:15.749][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 18:53:15.750][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.750][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.752][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-03 18:53:15.752][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 18:53:15.752][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.752][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.755][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 18:53:15.756][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 18:53:15.756][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.756][ef$get] fields variable is a list.
biodb.INFO [2025-02-03 18:53:15.759][biodb::testThat]
biodb.INFO [2025-02-03 18:53:15.759][biodb::testThat] Running test function test.rt.unit (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-02-03 18:53:15.759][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-03 18:53:15.759][biodb::testThat]
biodb.DEBUG[2025-02-03 18:53:15.764][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2025-02-03 18:53:15.767][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-03 18:53:15.769][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15440".
biodb.TRACE[2025-02-03 18:53:15.769][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 18:53:15.769][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml".
biodb.DEBUG[2025-02-03 18:53:15.770][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-03 18:53:15.780][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-03 18:53:15.780][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-03 18:53:15.781][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:15.781][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:15.781][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:15.783][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:15.783][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:15.784][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:15.784][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:15.785][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:15.786][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:15.786][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.786][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.786][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:15.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:15.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.793][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 18:53:15.793][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 18:53:15.794][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.794][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.794][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 18:53:15.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 18:53:15.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.795][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 18:53:15.796][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 18:53:15.796][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.796][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.796][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 18:53:15.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 18:53:15.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.797][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 18:53:15.798][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 18:53:15.798][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.798][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.799][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 18:53:15.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 18:53:15.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.800][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 18:53:15.800][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 18:53:15.800][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.800][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.803][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 18:53:15.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 18:53:15.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.804][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:15.804][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:15.805][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.805][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.805][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:15.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:15.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.806][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 18:53:15.807][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:15.807][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.807][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.807][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 18:53:15.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:15.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.809][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:15.809][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:15.809][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.809][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.810][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:15.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:15.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.811][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-03 18:53:15.811][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 18:53:15.811][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.811][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.812][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 18:53:15.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 18:53:15.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.813][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 18:53:15.813][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 18:53:15.813][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.814][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.814][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 18:53:15.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 18:53:15.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.816][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 18:53:15.817][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 18:53:15.817][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.817][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.818][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 18:53:15.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 18:53:15.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.819][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:15.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:15.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.820][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:15.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:15.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.821][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:15.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:15.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.822][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:15.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:15.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.823][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:15.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:15.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.825][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:15.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:15.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.826][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:15.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:15.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.827][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:15.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:15.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.828][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:15.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:15.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.829][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:15.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:15.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:15.830][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2025-02-03 18:53:15.830][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-02-03 18:53:15.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-02-03 18:53:15.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.835][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-02-03 18:53:15.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-02-03 18:53:15.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.836][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-02-03 18:53:15.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-02-03 18:53:15.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-02-03 18:53:15.840][biodb::testThat]
biodb.INFO [2025-02-03 18:53:15.840][biodb::testThat] Running test function test.searchForEntries (" We can search for an entry by searchable field ").
biodb.INFO [2025-02-03 18:53:15.840][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-03 18:53:15.841][biodb::testThat]
biodb.TRACE[2025-02-03 18:53:15.841][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-03 18:53:15.842][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 18:53:15.842][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.842][ef$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:15.843][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2025-02-03 18:53:15.851][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 18:53:15.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 18:53:15.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.852][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 18:53:15.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 18:53:15.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.855][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 18:53:15.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 18:53:15.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:15.857][function(conn, opt)] With value "squalene".
biodb.DEBUG[2025-02-03 18:53:15.859][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-02-03 18:53:15.865][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-03 18:53:15.870][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2025-02-03 18:53:15.871][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 18:53:15.871][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2025-02-03 18:53:15.878][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[2025-02-03 18:53:15.880][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-03 18:53:15.880][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-02-03 18:53:15.880][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 18:53:15.882][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-02-03 18:53:15.882][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2025-02-03 18:53:15.889][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:15.890][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:15.890][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.890][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.891][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:15.891][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:15.891][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.891][ef$get] fields variable is a list.
biodb.INFO [2025-02-03 18:53:15.893][biodb::testThat]
biodb.INFO [2025-02-03 18:53:15.893][biodb::testThat] Running test function test.searchByName (" We can search for an entry by name. ").
biodb.INFO [2025-02-03 18:53:15.894][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-03 18:53:15.894][biodb::testThat]
biodb.TRACE[2025-02-03 18:53:15.902][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 18:53:15.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 18:53:15.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.903][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 18:53:15.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 18:53:15.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.904][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 18:53:15.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 18:53:15.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:15.924][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[2025-02-03 18:53:15.925][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-03 18:53:15.925][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-02-03 18:53:15.926][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 18:53:15.926][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.INFO [2025-02-03 18:53:15.932][biodb::testThat]
biodb.INFO [2025-02-03 18:53:15.933][biodb::testThat] Running test function testEntryLoading (" We can load an entry from the database. ").
biodb.INFO [2025-02-03 18:53:15.933][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-03 18:53:15.933][biodb::testThat]
biodb.TRACE[2025-02-03 18:53:15.940][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 18:53:15.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 18:53:15.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.944][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 18:53:15.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 18:53:15.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.945][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 18:53:15.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 18:53:15.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.946][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 18:53:15.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 18:53:15.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.947][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:15.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:15.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.948][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:15.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:15.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.949][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-02-03 18:53:15.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-02-03 18:53:15.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.950][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-02-03 18:53:15.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-02-03 18:53:15.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.951][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-02-03 18:53:15.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-02-03 18:53:15.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.952][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-02-03 18:53:15.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-02-03 18:53:15.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.959][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 18:53:15.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 18:53:15.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.960][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 18:53:15.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 18:53:15.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.961][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 18:53:15.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 18:53:15.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.962][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 18:53:15.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 18:53:15.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.963][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:15.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:15.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.964][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:15.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:15.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.965][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-02-03 18:53:15.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-02-03 18:53:15.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.966][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-02-03 18:53:15.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-02-03 18:53:15.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.967][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-02-03 18:53:15.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-02-03 18:53:15.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:15.968][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-02-03 18:53:15.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-02-03 18:53:15.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:15.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-02-03 18:53:15.972][biodb::testThat]
biodb.INFO [2025-02-03 18:53:15.972][biodb::testThat] Running test function test.entry.page.url (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-02-03 18:53:15.972][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-03 18:53:15.972][biodb::testThat]
biodb.INFO [2025-02-03 18:53:15.975][biodb::testThat]
biodb.INFO [2025-02-03 18:53:15.976][biodb::testThat] Running test function test.entry.image.url (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-02-03 18:53:15.976][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-03 18:53:15.976][biodb::testThat]
biodb.INFO [2025-02-03 18:53:15.979][biodb::testThat]
biodb.INFO [2025-02-03 18:53:15.979][biodb::testThat] Running test function test.entry.page.url.download (" The entry page URL can be downloaded. ").
biodb.INFO [2025-02-03 18:53:15.980][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-03 18:53:15.980][biodb::testThat]
biodb.DEBUG[2025-02-03 18:53:15.981][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
biodb.DEBUG[2025-02-03 18:53:16.842][getUrlContent] Use RCurl for downloading content of URL https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440.
biodb.INFO [2025-02-03 18:53:18.202][biodb::testThat]
biodb.INFO [2025-02-03 18:53:18.202][biodb::testThat] Running test function test.entry.image.url.download (" The entry image URL can be downloaded. ").
biodb.INFO [2025-02-03 18:53:18.202][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-03 18:53:18.203][biodb::testThat]
biodb.DEBUG[2025-02-03 18:53:18.611][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[2025-02-03 18:53:19.031][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-03 18:53:19.032][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 18:53:19.032][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:19.032][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:19.033][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:19.033][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:19.033][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:19.033][ef$get] fields variable is a list.
biodb.INFO [2025-02-03 18:53:19.034][biodb::testThat]
biodb.INFO [2025-02-03 18:53:19.034][biodb::testThat] Running test function test.searchCompound (" We can search for a compound ").
biodb.INFO [2025-02-03 18:53:19.035][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-03 18:53:19.035][biodb::testThat]
biodb.TRACE[2025-02-03 18:53:19.039][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 18:53:19.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 18:53:19.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:19.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:19.040][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 18:53:19.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 18:53:19.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:19.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:19.041][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 18:53:19.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 18:53:19.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:19.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:19.074][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[2025-02-03 18:53:19.075][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-03 18:53:19.076][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-02-03 18:53:19.076][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 18:53:19.076][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-02-03 18:53:19.099][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[2025-02-03 18:53:19.100][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-03 18:53:19.100][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-02-03 18:53:19.101][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 18:53:19.101][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.TRACE[2025-02-03 18:53:19.106][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-02-03 18:53:19.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-02-03 18:53:19.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:19.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:19.109][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:19.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:19.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:19.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:19.110][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:19.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:19.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:19.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:19.111][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:19.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:19.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:19.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:19.112][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:19.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:19.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:19.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:19.113][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:19.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:19.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:19.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:19.117][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[2025-02-03 18:53:19.118][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-03 18:53:19.119][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-02-03 18:53:19.119][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 18:53:19.120][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-02-03 18:53:19.121][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:19.121][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:19.121][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:19.123][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:19.123][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:19.124][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:19.124][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:19.124][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2025-02-03 18:53:19.142][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-03 18:53:19.143][cch$loadFileContent] Trying to load 1 files from cache: [1]: "192288".
biodb.TRACE[2025-02-03 18:53:19.144][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-02-03 18:53:19.144][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-02-03 18:53:19.144][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-03 18:53:19.145][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-02-03 18:53:19.145][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-02-03 18:53:19.145][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-02-03 18:53:19.146][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:19.146][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:19.146][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:19.148][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:19.149][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:19.149][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:19.149][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[2025-02-03 18:53:19.149][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=192288".
biodb.DEBUG[2025-02-03 18:53:19.150][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-03 18:53:19.151][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-03 18:53:19.151][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=192288".
biodb.TRACE[2025-02-03 18:53:19.547][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=192288).
biodb.DEBUG[2025-02-03 18:53:19.895][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-02-03 18:53:19.896][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7e76f7a384ab933ed01801c92c3eec77.content"
biodb.TRACE[2025-02-03 18:53:19.901][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7e76f7a384ab933ed01801c92c3eec77.request"
biodb.TRACE[2025-02-03 18:53:19.902][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml"
biodb.DEBUG[2025-02-03 18:53:19.903][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-02-03 18:53:19.903][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-03 18:53:19.904][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-03 18:53:19.904][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:19.904][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:19.905][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:19.907][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:19.907][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:19.907][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:19.907][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:19.908][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:19.908][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:19.909][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:19.909][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:19.909][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:19.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:19.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:19.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:19.910][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 18:53:19.911][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 18:53:19.911][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:19.911][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:19.912][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 18:53:19.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 18:53:19.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:19.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:19.913][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 18:53:19.913][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 18:53:19.913][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:19.913][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:19.914][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 18:53:19.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 18:53:19.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:19.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:19.915][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 18:53:19.915][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 18:53:19.916][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:19.916][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:19.916][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 18:53:19.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 18:53:19.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:19.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:19.917][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 18:53:19.917][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 18:53:19.918][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:19.918][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:19.918][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 18:53:19.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 18:53:19.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:19.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:19.919][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:19.920][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:19.920][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:19.920][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:19.920][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 18:53:19.921][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:19.921][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:19.921][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:19.921][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 18:53:19.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:19.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:19.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:19.922][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:19.925][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:19.926][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:19.927][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:19.927][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:19.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:19.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:19.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:19.928][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-03 18:53:19.928][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 18:53:19.929][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:19.929][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:19.929][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 18:53:19.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 18:53:19.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:19.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:19.930][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 18:53:19.931][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 18:53:19.931][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:19.931][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:19.931][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 18:53:19.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 18:53:19.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:19.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:19.932][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 18:53:19.933][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 18:53:19.933][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:19.933][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:19.933][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 18:53:19.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 18:53:19.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:19.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:19.935][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:19.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:19.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:19.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:19.936][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:19.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:19.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:19.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:19.937][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:19.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:19.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:19.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:19.938][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:19.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:19.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:19.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:19.939][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:19.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:19.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:19.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:19.940][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:19.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:19.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:19.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:19.941][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:19.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:19.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:19.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:19.942][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:19.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:19.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:19.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:19.943][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:19.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:19.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:19.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:19.944][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:19.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:19.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:19.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:19.945][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2025-02-03 18:53:19.948][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:19.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:19.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:19.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:19.949][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:19.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:19.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:19.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:19.950][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:19.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:19.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:19.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:19.951][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[2025-02-03 18:53:19.953][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-03 18:53:19.953][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-02-03 18:53:19.954][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 18:53:19.954][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-02-03 18:53:19.959][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:19.959][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:19.960][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:19.964][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:19.964][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:19.964][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:19.964][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:19.965][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:19.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:19.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:19.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:19.966][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:19.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:19.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:19.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:19.967][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:19.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:19.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:19.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:19.968][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:19.968][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:19.969][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:19.970][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:19.970][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:19.971][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:19.971][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:19.971][private$loadEntries] Creating entries from ids [1]: "209892".
biodb.DEBUG[2025-02-03 18:53:19.971][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-03 18:53:19.972][cch$loadFileContent] Trying to load 1 files from cache: [1]: "209892".
biodb.TRACE[2025-02-03 18:53:19.972][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-02-03 18:53:19.973][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-02-03 18:53:19.973][conn$getEntryContent] 0 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-03 18:53:19.973][conn$getEntryContent] 1 entry content(s) need to be fetched from ChEBI database "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-02-03 18:53:19.973][conn$getEntryContent] dwnld.chunk.size=NA
biodb.DEBUG[2025-02-03 18:53:19.974][conn$getEntryContent] 1 chunk(s) to download.
biodb.DEBUG[2025-02-03 18:53:19.978][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:19.979][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:19.979][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:19.981][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:19.981][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:19.981][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:19.981][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:19.982][scheduler$sendRequest] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=209892".
biodb.DEBUG[2025-02-03 18:53:19.987][private$doSendRequestLoop] Request header is: "".
biodb.DEBUG[2025-02-03 18:53:19.987][private$doSendRequestLoop] Request body is "".
biodb.TRACE[2025-02-03 18:53:19.991][private$doSendRequestOnce] Sent URL is "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=209892".
biodb.TRACE[2025-02-03 18:53:20.391][getRCurlRequestResult] Using RCurl package for sending request (https://www.ebi.ac.uk/webservices/chebi/2.0/test/getCompleteEntity?chebiId=209892).
biodb.DEBUG[2025-02-03 18:53:20.749][scheduler$sendRequest] Saving content of request to cache.
biodb.TRACE[2025-02-03 18:53:20.750][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7a3362365076d47cdf0955cccdd37bcf.content"
biodb.TRACE[2025-02-03 18:53:20.751][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7a3362365076d47cdf0955cccdd37bcf.request"
biodb.TRACE[2025-02-03 18:53:20.752][private$doSaveContentToFile] Saving to cache [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/209892.xml"
biodb.DEBUG[2025-02-03 18:53:20.753][conn$getEntryContent] Now 0 id(s) left to be retrieved...
biodb.DEBUG[2025-02-03 18:53:20.753][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-03 18:53:20.754][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-03 18:53:20.754][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:20.755][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:20.755][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:20.761][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:20.761][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:20.761][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:20.762][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:20.763][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:20.763][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:20.763][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.763][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.764][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:20.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:20.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.765][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 18:53:20.765][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 18:53:20.766][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.766][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.766][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 18:53:20.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 18:53:20.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.767][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 18:53:20.768][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 18:53:20.768][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.768][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.768][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 18:53:20.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 18:53:20.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.770][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 18:53:20.770][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 18:53:20.770][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.770][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.771][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 18:53:20.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 18:53:20.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.772][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 18:53:20.773][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 18:53:20.773][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.773][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.774][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 18:53:20.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 18:53:20.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.775][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:20.775][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:20.775][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.775][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.776][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 18:53:20.776][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:20.776][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.777][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.777][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 18:53:20.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:20.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.778][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:20.778][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:20.779][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.779][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.779][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:20.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:20.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.780][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-03 18:53:20.781][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 18:53:20.781][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.781][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.781][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 18:53:20.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 18:53:20.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.782][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 18:53:20.783][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 18:53:20.783][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.783][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.783][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 18:53:20.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 18:53:20.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.784][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 18:53:20.785][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 18:53:20.785][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.785][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.786][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 18:53:20.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 18:53:20.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.787][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:20.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:20.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.788][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:20.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:20.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.789][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:20.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:20.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.790][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:20.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:20.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.791][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:20.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:20.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.793][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:20.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:20.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.794][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:20.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:20.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.795][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:20.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:20.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.798][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:20.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:20.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.799][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:20.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:20.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:20.800][self$createEntryFromContent] Accession numbers: 209892.
biodb.TRACE[2025-02-03 18:53:20.801][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:20.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:20.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.802][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:20.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:20.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.803][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:20.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:20.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:20.812][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[2025-02-03 18:53:20.813][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-03 18:53:20.814][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-02-03 18:53:20.814][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 18:53:20.814][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-02-03 18:53:20.815][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:20.816][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:20.816][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:20.817][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:20.818][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:20.818][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:20.818][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:20.819][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:20.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:20.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.820][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:20.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:20.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.821][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:20.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:20.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:20.822][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:20.822][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:20.822][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:20.823][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:20.824][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:20.824][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:20.824][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[2025-02-03 18:53:20.824][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2025-02-03 18:53:20.825][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-03 18:53:20.825][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26747".
biodb.TRACE[2025-02-03 18:53:20.826][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 18:53:20.827][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml".
biodb.DEBUG[2025-02-03 18:53:20.827][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-03 18:53:20.828][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-03 18:53:20.828][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-03 18:53:20.828][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:20.829][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:20.829][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:20.831][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:20.831][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:20.831][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:20.832][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:20.832][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:20.833][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:20.833][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.833][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.834][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:20.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:20.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.835][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 18:53:20.835][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 18:53:20.835][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.837][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.837][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 18:53:20.838][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 18:53:20.838][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.838][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.839][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 18:53:20.839][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 18:53:20.839][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.840][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.840][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 18:53:20.840][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 18:53:20.840][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.841][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.841][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:20.841][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:20.844][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.844][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.845][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 18:53:20.845][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:20.845][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.846][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.846][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:20.846][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:20.847][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.847][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.847][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-03 18:53:20.847][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 18:53:20.848][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.848][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.848][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 18:53:20.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 18:53:20.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.849][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 18:53:20.850][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 18:53:20.850][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.850][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.850][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 18:53:20.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 18:53:20.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.851][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 18:53:20.852][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 18:53:20.852][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.852][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.853][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:20.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:20.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.854][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:20.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:20.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.855][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:20.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:20.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.856][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:20.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:20.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.857][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:20.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:20.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.858][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:20.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:20.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.859][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:20.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:20.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.860][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:20.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:20.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.861][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:20.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:20.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.862][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:20.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:20.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:20.863][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2025-02-03 18:53:20.863][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:20.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:20.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.864][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:20.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:20.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.865][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:20.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:20.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.866][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:20.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:20.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.867][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:20.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:20.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:20.869][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:20.869][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:20.869][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:20.871][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:20.871][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:20.871][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:20.872][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:20.872][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2025-02-03 18:53:20.872][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-03 18:53:20.873][cch$loadFileContent] Trying to load 1 files from cache: [1]: "59285".
biodb.TRACE[2025-02-03 18:53:20.873][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 18:53:20.874][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml".
biodb.DEBUG[2025-02-03 18:53:20.874][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-03 18:53:20.874][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-03 18:53:20.875][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-03 18:53:20.875][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:20.875][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:20.876][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:20.877][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:20.878][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:20.878][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:20.878][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:20.879][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:20.879][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:20.882][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.882][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.882][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:20.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:20.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.883][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 18:53:20.884][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 18:53:20.884][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.884][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.884][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 18:53:20.885][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 18:53:20.885][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.885][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.886][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 18:53:20.886][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 18:53:20.886][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.886][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.887][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 18:53:20.887][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 18:53:20.887][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.887][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.888][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:20.888][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:20.888][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.888][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.889][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 18:53:20.889][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:20.889][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.889][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.890][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:20.890][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:20.890][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.890][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.891][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-03 18:53:20.891][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 18:53:20.891][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.891][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.892][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 18:53:20.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 18:53:20.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.893][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 18:53:20.893][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 18:53:20.893][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.894][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.894][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 18:53:20.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 18:53:20.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.895][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 18:53:20.895][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 18:53:20.895][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.896][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.896][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:20.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:20.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.897][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:20.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:20.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.898][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:20.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:20.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.899][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:20.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:20.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.900][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:20.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:20.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.901][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:20.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:20.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.902][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:20.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:20.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.903][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:20.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:20.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.904][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:20.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:20.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.905][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:20.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:20.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:20.906][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2025-02-03 18:53:20.906][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:20.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:20.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.907][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:20.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:20.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.908][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:20.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:20.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.909][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:20.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:20.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.910][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:20.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:20.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:20.911][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:20.911][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:20.912][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:20.914][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:20.916][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:20.917][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:20.917][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:20.917][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2025-02-03 18:53:20.917][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-03 18:53:20.918][cch$loadFileContent] Trying to load 1 files from cache: [1]: "75174".
biodb.TRACE[2025-02-03 18:53:20.919][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 18:53:20.920][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml".
biodb.DEBUG[2025-02-03 18:53:20.920][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-03 18:53:20.920][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-03 18:53:20.921][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-03 18:53:20.921][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:20.921][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:20.922][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:20.925][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:20.925][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:20.925][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:20.926][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:20.926][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:20.927][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:20.927][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.927][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.928][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:20.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:20.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.929][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 18:53:20.929][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 18:53:20.929][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.929][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.930][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 18:53:20.930][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 18:53:20.930][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.930][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.931][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 18:53:20.931][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 18:53:20.931][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.932][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.932][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 18:53:20.932][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 18:53:20.932][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.933][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.933][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:20.933][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:20.934][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.934][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.934][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 18:53:20.934][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:20.935][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.935][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.935][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:20.935][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:20.936][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.936][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.936][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-03 18:53:20.937][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 18:53:20.937][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.937][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.938][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 18:53:20.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 18:53:20.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.939][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 18:53:20.939][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 18:53:20.939][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.939][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.940][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 18:53:20.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 18:53:20.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.941][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 18:53:20.941][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 18:53:20.941][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.941][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.942][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:20.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:20.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.943][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:20.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:20.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.946][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:20.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:20.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.947][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:20.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:20.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.948][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:20.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:20.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.949][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:20.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:20.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.950][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:20.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:20.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.951][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:20.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:20.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.952][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:20.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:20.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.953][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:20.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:20.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:20.954][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2025-02-03 18:53:20.954][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:20.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:20.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.958][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:20.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:20.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.959][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:20.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:20.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.960][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:20.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:20.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.961][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:20.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:20.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:20.962][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:20.963][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:20.963][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:20.965][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:20.966][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:20.966][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:20.966][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:20.967][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2025-02-03 18:53:20.968][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-03 18:53:20.969][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15441".
biodb.TRACE[2025-02-03 18:53:20.969][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 18:53:20.970][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml".
biodb.DEBUG[2025-02-03 18:53:20.970][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-03 18:53:20.970][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-03 18:53:20.971][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-03 18:53:20.971][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:20.971][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:20.972][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:20.974][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:20.974][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:20.974][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:20.975][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:20.976][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:20.976][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:20.977][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.977][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.977][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:20.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:20.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.978][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 18:53:20.979][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 18:53:20.979][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.979][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.980][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 18:53:20.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 18:53:20.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.981][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 18:53:20.981][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 18:53:20.981][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.982][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.983][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 18:53:20.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 18:53:20.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.984][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 18:53:20.984][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 18:53:20.984][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.985][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.985][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 18:53:20.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 18:53:20.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.987][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 18:53:20.987][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 18:53:20.987][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.988][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.988][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 18:53:20.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 18:53:20.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.989][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:20.990][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:20.990][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.990][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.990][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:20.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:20.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.992][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 18:53:20.992][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:20.992][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.992][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.993][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 18:53:20.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:20.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.994][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:20.994][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:20.994][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.995][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.995][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:20.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:20.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.996][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-03 18:53:20.996][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 18:53:20.996][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.997][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.997][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 18:53:20.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 18:53:20.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:20.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:20.998][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 18:53:21.001][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 18:53:21.001][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.002][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.002][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 18:53:21.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 18:53:21.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.003][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 18:53:21.003][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 18:53:21.004][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.004][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.004][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 18:53:21.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 18:53:21.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.005][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.006][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.007][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.008][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.009][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.010][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.011][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.012][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.013][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.014][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:21.015][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2025-02-03 18:53:21.016][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.017][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.018][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:21.019][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:21.019][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:21.020][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:21.022][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:21.022][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:21.022][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:21.022][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:21.023][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2025-02-03 18:53:21.023][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-03 18:53:21.023][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15442".
biodb.TRACE[2025-02-03 18:53:21.024][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 18:53:21.025][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml".
biodb.DEBUG[2025-02-03 18:53:21.025][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-03 18:53:21.025][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-03 18:53:21.026][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-03 18:53:21.026][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:21.026][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:21.027][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:21.028][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:21.028][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:21.029][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:21.029][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:21.030][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.030][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.030][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.030][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.031][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.032][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 18:53:21.032][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 18:53:21.032][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.033][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.033][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 18:53:21.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 18:53:21.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.034][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 18:53:21.034][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 18:53:21.034][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.035][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.035][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 18:53:21.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 18:53:21.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.047][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 18:53:21.048][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 18:53:21.048][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.048][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.048][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 18:53:21.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 18:53:21.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.050][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 18:53:21.050][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 18:53:21.050][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.050][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.051][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 18:53:21.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 18:53:21.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.052][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:21.052][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:21.052][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.052][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.053][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:21.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:21.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.054][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 18:53:21.054][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.054][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.055][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.055][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 18:53:21.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.056][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:21.056][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:21.056][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.057][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.057][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:21.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:21.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.058][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-03 18:53:21.058][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 18:53:21.058][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.059][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.059][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 18:53:21.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 18:53:21.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.060][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 18:53:21.060][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 18:53:21.061][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.061][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.061][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 18:53:21.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 18:53:21.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.062][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 18:53:21.062][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 18:53:21.063][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.063][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.063][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 18:53:21.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 18:53:21.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.064][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.065][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.066][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.067][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.068][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.069][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.070][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.071][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.072][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.073][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:21.074][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2025-02-03 18:53:21.074][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.075][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.076][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:21.077][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:21.077][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:21.078][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:21.080][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:21.080][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:21.082][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:21.083][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:21.083][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2025-02-03 18:53:21.083][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-03 18:53:21.084][cch$loadFileContent] Trying to load 1 files from cache: [1]: "57310".
biodb.TRACE[2025-02-03 18:53:21.085][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 18:53:21.086][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml".
biodb.DEBUG[2025-02-03 18:53:21.086][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-03 18:53:21.087][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-03 18:53:21.087][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-03 18:53:21.088][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:21.088][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:21.088][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:21.090][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:21.090][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:21.091][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:21.091][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:21.092][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.092][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.092][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.093][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.093][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.094][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 18:53:21.094][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 18:53:21.095][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.095][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.095][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 18:53:21.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 18:53:21.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.096][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 18:53:21.097][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 18:53:21.097][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.097][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.098][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 18:53:21.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 18:53:21.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.099][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 18:53:21.099][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 18:53:21.100][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.100][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.100][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 18:53:21.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 18:53:21.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.101][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 18:53:21.102][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 18:53:21.102][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.102][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.102][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 18:53:21.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 18:53:21.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.103][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:21.104][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:21.104][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.104][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.104][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 18:53:21.105][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.105][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.105][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.106][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 18:53:21.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.107][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:21.107][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:21.107][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.107][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.108][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:21.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:21.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.109][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-03 18:53:21.109][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 18:53:21.109][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.109][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.110][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 18:53:21.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 18:53:21.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.111][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 18:53:21.111][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 18:53:21.111][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.111][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.112][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 18:53:21.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 18:53:21.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.113][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 18:53:21.113][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 18:53:21.113][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.113][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.114][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 18:53:21.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 18:53:21.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.115][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.115][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.116][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.117][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.118][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.122][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.123][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.124][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.125][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.126][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:21.126][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2025-02-03 18:53:21.127][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.128][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.128][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:21.129][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:21.130][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:21.130][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:21.132][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:21.132][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:21.132][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:21.132][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[2025-02-03 18:53:21.133][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2025-02-03 18:53:21.133][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-03 18:53:21.133][cch$loadFileContent] Trying to load 1 files from cache: [1]: "66216".
biodb.TRACE[2025-02-03 18:53:21.134][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 18:53:21.135][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml".
biodb.DEBUG[2025-02-03 18:53:21.135][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-03 18:53:21.136][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-03 18:53:21.136][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-03 18:53:21.136][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:21.137][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:21.137][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:21.139][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:21.139][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:21.139][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:21.139][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:21.140][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.141][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.141][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.141][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.141][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.142][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 18:53:21.143][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 18:53:21.143][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.143][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.144][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 18:53:21.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 18:53:21.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.145][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 18:53:21.145][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 18:53:21.145][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.145][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.146][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 18:53:21.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 18:53:21.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.147][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 18:53:21.147][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 18:53:21.147][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.147][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.148][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 18:53:21.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 18:53:21.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.149][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 18:53:21.149][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 18:53:21.149][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.150][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.150][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 18:53:21.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 18:53:21.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.151][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:21.151][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:21.151][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.152][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.152][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 18:53:21.152][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.153][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.153][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.153][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 18:53:21.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.154][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:21.154][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:21.155][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.155][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.155][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:21.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:21.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.159][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-03 18:53:21.159][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 18:53:21.159][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.160][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.160][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 18:53:21.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 18:53:21.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.161][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 18:53:21.161][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 18:53:21.162][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.162][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.162][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 18:53:21.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 18:53:21.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.163][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 18:53:21.164][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 18:53:21.164][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.164][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.164][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 18:53:21.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 18:53:21.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.165][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.166][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.167][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.181][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.182][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.183][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.184][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.185][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.186][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.187][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:21.188][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2025-02-03 18:53:21.189][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.190][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.190][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:21.191][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:21.192][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:21.192][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:21.196][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:21.197][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:21.197][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:21.197][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:21.197][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2025-02-03 18:53:21.198][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-03 18:53:21.198][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70860".
biodb.TRACE[2025-02-03 18:53:21.200][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 18:53:21.201][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml".
biodb.DEBUG[2025-02-03 18:53:21.202][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-03 18:53:21.202][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-03 18:53:21.202][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-03 18:53:21.203][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:21.203][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:21.203][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:21.206][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:21.206][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:21.207][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:21.207][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:21.208][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.208][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.208][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.208][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.209][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.210][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 18:53:21.210][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 18:53:21.210][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.211][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.211][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 18:53:21.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 18:53:21.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.213][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 18:53:21.215][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 18:53:21.216][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.216][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.217][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 18:53:21.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 18:53:21.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.218][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 18:53:21.218][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 18:53:21.218][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.219][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.219][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 18:53:21.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 18:53:21.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.220][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 18:53:21.220][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 18:53:21.221][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.221][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.221][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 18:53:21.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 18:53:21.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.222][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:21.223][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:21.223][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.223][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.224][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 18:53:21.224][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.224][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.224][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.225][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 18:53:21.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.226][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:21.226][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:21.226][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.227][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.227][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:21.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:21.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.228][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-03 18:53:21.228][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 18:53:21.228][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.229][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.229][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 18:53:21.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 18:53:21.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.230][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 18:53:21.231][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 18:53:21.231][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.231][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.231][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 18:53:21.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 18:53:21.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.232][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 18:53:21.233][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 18:53:21.233][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.233][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.234][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 18:53:21.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 18:53:21.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.235][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.236][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.237][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.238][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.239][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.241][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.242][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.243][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.244][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.245][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:21.246][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2025-02-03 18:53:21.246][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.247][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.248][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:21.249][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:21.250][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:21.250][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:21.254][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:21.254][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:21.255][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:21.255][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:21.255][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2025-02-03 18:53:21.256][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-03 18:53:21.256][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70861".
biodb.TRACE[2025-02-03 18:53:21.256][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 18:53:21.257][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml".
biodb.DEBUG[2025-02-03 18:53:21.257][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-03 18:53:21.258][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-03 18:53:21.258][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-03 18:53:21.258][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:21.259][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:21.259][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:21.261][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:21.261][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:21.261][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:21.261][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:21.262][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.263][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.263][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.263][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.264][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.265][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 18:53:21.265][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 18:53:21.265][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.265][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.266][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 18:53:21.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 18:53:21.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.267][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 18:53:21.267][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 18:53:21.267][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.268][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.268][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 18:53:21.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 18:53:21.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.269][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 18:53:21.269][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 18:53:21.269][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.270][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.270][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 18:53:21.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 18:53:21.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.271][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 18:53:21.271][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 18:53:21.272][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.272][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.272][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 18:53:21.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 18:53:21.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.273][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:21.274][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:21.274][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.274][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.275][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 18:53:21.275][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.275][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.275][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.276][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 18:53:21.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.277][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:21.277][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:21.277][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.277][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.278][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:21.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:21.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.279][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-03 18:53:21.279][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 18:53:21.279][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.279][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.280][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 18:53:21.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 18:53:21.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.281][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 18:53:21.281][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 18:53:21.281][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.282][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.282][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 18:53:21.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 18:53:21.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.283][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 18:53:21.283][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 18:53:21.283][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.284][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.284][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 18:53:21.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 18:53:21.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.286][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.287][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.288][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.289][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.292][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.294][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.295][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.296][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.297][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.298][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:21.299][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2025-02-03 18:53:21.300][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.301][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.302][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:21.303][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:21.303][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:21.303][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:21.305][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:21.306][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:21.306][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:21.306][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:21.306][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2025-02-03 18:53:21.307][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-03 18:53:21.307][cch$loadFileContent] Trying to load 1 files from cache: [1]: "78662".
biodb.TRACE[2025-02-03 18:53:21.308][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 18:53:21.309][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml".
biodb.DEBUG[2025-02-03 18:53:21.309][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-03 18:53:21.309][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-03 18:53:21.310][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-03 18:53:21.310][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:21.310][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:21.311][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:21.313][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:21.313][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:21.313][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:21.314][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:21.314][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.315][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.315][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.315][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.316][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.317][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 18:53:21.317][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 18:53:21.317][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.317][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.318][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 18:53:21.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 18:53:21.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.319][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 18:53:21.319][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 18:53:21.319][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.320][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.320][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 18:53:21.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 18:53:21.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.321][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 18:53:21.321][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 18:53:21.322][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.322][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.322][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 18:53:21.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 18:53:21.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.325][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 18:53:21.325][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 18:53:21.325][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.325][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.326][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 18:53:21.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 18:53:21.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.327][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:21.327][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:21.328][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.328][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.328][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 18:53:21.328][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.329][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.329][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.329][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 18:53:21.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.331][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:21.331][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:21.331][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.334][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.334][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:21.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:21.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.336][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-03 18:53:21.336][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 18:53:21.337][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.337][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.337][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 18:53:21.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 18:53:21.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.338][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 18:53:21.339][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 18:53:21.339][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.339][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.339][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 18:53:21.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 18:53:21.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.340][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 18:53:21.341][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 18:53:21.341][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.341][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.342][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 18:53:21.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 18:53:21.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.343][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.344][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.345][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.346][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.347][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.349][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.352][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.353][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.354][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.355][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:21.356][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2025-02-03 18:53:21.356][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.357][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.358][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:21.359][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:21.360][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:21.360][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:21.362][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:21.362][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:21.362][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:21.363][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:21.363][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2025-02-03 18:53:21.363][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-03 18:53:21.364][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85084".
biodb.TRACE[2025-02-03 18:53:21.364][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 18:53:21.365][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml".
biodb.DEBUG[2025-02-03 18:53:21.365][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-03 18:53:21.366][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-03 18:53:21.366][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-03 18:53:21.366][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:21.367][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:21.367][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:21.368][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:21.369][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:21.369][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:21.369][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:21.370][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.370][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.370][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.371][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.371][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.372][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 18:53:21.372][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 18:53:21.373][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.373][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.375][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 18:53:21.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 18:53:21.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.377][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 18:53:21.377][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 18:53:21.377][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.378][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.378][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 18:53:21.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 18:53:21.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.379][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 18:53:21.379][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 18:53:21.379][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.380][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.380][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 18:53:21.380][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 18:53:21.381][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.381][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.381][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:21.381][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:21.382][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.382][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.382][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 18:53:21.382][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.383][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.383][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.383][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 18:53:21.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.385][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:21.385][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:21.385][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.385][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.386][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:21.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:21.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.387][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-03 18:53:21.387][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 18:53:21.387][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.388][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.388][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 18:53:21.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 18:53:21.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.389][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 18:53:21.389][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 18:53:21.390][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.390][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.390][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 18:53:21.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 18:53:21.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.391][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 18:53:21.392][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 18:53:21.392][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.392][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.392][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.393][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.394][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.396][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.397][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.397][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.398][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.400][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.401][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.401][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:21.402][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2025-02-03 18:53:21.403][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.404][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.405][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:21.406][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:21.406][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:21.406][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:21.408][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:21.409][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:21.409][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:21.409][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:21.409][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2025-02-03 18:53:21.412][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-03 18:53:21.414][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85086".
biodb.TRACE[2025-02-03 18:53:21.414][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 18:53:21.415][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml".
biodb.DEBUG[2025-02-03 18:53:21.415][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-03 18:53:21.415][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-03 18:53:21.416][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-03 18:53:21.416][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:21.417][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:21.417][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:21.419][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:21.419][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:21.419][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:21.420][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:21.421][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.421][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.422][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.422][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.422][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.423][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 18:53:21.424][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 18:53:21.424][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.424][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.425][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 18:53:21.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 18:53:21.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.426][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 18:53:21.426][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 18:53:21.426][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.427][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.427][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 18:53:21.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 18:53:21.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.428][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 18:53:21.429][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 18:53:21.429][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.429][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.429][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 18:53:21.430][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 18:53:21.430][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.430][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.430][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:21.431][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:21.431][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.431][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.432][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 18:53:21.432][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.432][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.432][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.433][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 18:53:21.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.434][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:21.434][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:21.435][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.435][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.435][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:21.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:21.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.436][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-03 18:53:21.437][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 18:53:21.437][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.437][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.438][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 18:53:21.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 18:53:21.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.439][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 18:53:21.439][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 18:53:21.439][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.439][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.440][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 18:53:21.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 18:53:21.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.441][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 18:53:21.441][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 18:53:21.441][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.442][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.442][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.443][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.444][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.445][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.446][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.447][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.448][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.449][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.453][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.454][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:21.455][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2025-02-03 18:53:21.456][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.457][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.458][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:21.459][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:21.459][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:21.460][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:21.461][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:21.462][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:21.462][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:21.462][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[2025-02-03 18:53:21.462][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2025-02-03 18:53:21.463][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-03 18:53:21.463][cch$loadFileContent] Trying to load 1 files from cache: [1]: "88123".
biodb.TRACE[2025-02-03 18:53:21.464][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 18:53:21.464][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml".
biodb.DEBUG[2025-02-03 18:53:21.465][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-03 18:53:21.465][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-03 18:53:21.466][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-03 18:53:21.466][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:21.467][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:21.467][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:21.469][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:21.469][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:21.469][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:21.470][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:21.470][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.471][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.471][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.471][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.472][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.473][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 18:53:21.473][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 18:53:21.473][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.473][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.474][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 18:53:21.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 18:53:21.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.475][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 18:53:21.475][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 18:53:21.475][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.476][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.476][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 18:53:21.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 18:53:21.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.477][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 18:53:21.477][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 18:53:21.477][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.478][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.478][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 18:53:21.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 18:53:21.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.479][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 18:53:21.479][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 18:53:21.480][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.480][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.480][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 18:53:21.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 18:53:21.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.481][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:21.481][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:21.482][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.482][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.482][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 18:53:21.483][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.483][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.483][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.483][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 18:53:21.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.484][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:21.485][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:21.485][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.485][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.485][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:21.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:21.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.486][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-03 18:53:21.487][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 18:53:21.487][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.487][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.488][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 18:53:21.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 18:53:21.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.489][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 18:53:21.489][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 18:53:21.489][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.489][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.493][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 18:53:21.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 18:53:21.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.494][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 18:53:21.494][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 18:53:21.495][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.495][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.495][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 18:53:21.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 18:53:21.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.496][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.497][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.499][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.500][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.501][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.502][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.503][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.504][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.505][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.506][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:21.507][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2025-02-03 18:53:21.507][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.508][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.509][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:21.510][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:21.511][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:21.511][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:21.513][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:21.513][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:21.514][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:21.514][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[2025-02-03 18:53:21.514][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2025-02-03 18:53:21.514][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-03 18:53:21.515][cch$loadFileContent] Trying to load 1 files from cache: [1]: "134117".
biodb.TRACE[2025-02-03 18:53:21.515][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 18:53:21.516][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml".
biodb.DEBUG[2025-02-03 18:53:21.517][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-03 18:53:21.517][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-03 18:53:21.517][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-03 18:53:21.518][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:21.518][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:21.518][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:21.520][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:21.521][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:21.521][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:21.521][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:21.522][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.523][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.523][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.523][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.523][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.524][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 18:53:21.525][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 18:53:21.525][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.525][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.526][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 18:53:21.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 18:53:21.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.527][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 18:53:21.527][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 18:53:21.527][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.527][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.528][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 18:53:21.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 18:53:21.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.529][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 18:53:21.529][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 18:53:21.529][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.530][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.533][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 18:53:21.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 18:53:21.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.534][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 18:53:21.535][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 18:53:21.535][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.535][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.536][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 18:53:21.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 18:53:21.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.537][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:21.537][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:21.537][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.538][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.538][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 18:53:21.538][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.539][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.539][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.539][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 18:53:21.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.540][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:21.541][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:21.541][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.541][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.541][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:21.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:21.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.543][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-03 18:53:21.543][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 18:53:21.543][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.543][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.544][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 18:53:21.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 18:53:21.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.545][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 18:53:21.545][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 18:53:21.545][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.546][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.546][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 18:53:21.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 18:53:21.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.547][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 18:53:21.547][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 18:53:21.548][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.548][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.548][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 18:53:21.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 18:53:21.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.549][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.550][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.551][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.552][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.553][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.554][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.555][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.557][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.558][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.559][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:21.560][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2025-02-03 18:53:21.560][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.561][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.562][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:21.563][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:21.563][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:21.563][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:21.566][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:21.566][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:21.566][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:21.566][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[2025-02-03 18:53:21.567][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2025-02-03 18:53:21.567][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-03 18:53:21.567][cch$loadFileContent] Trying to load 1 files from cache: [1]: "138307".
biodb.TRACE[2025-02-03 18:53:21.568][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 18:53:21.571][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml".
biodb.DEBUG[2025-02-03 18:53:21.572][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-03 18:53:21.572][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-03 18:53:21.573][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-03 18:53:21.573][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:21.574][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:21.574][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:21.576][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:21.576][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:21.576][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:21.576][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:21.577][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.578][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.578][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.578][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.578][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.579][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 18:53:21.580][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 18:53:21.580][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.580][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.581][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 18:53:21.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 18:53:21.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.582][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 18:53:21.582][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 18:53:21.582][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.582][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.583][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 18:53:21.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 18:53:21.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.584][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 18:53:21.584][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 18:53:21.584][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.584][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.585][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 18:53:21.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 18:53:21.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.586][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 18:53:21.586][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 18:53:21.586][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.587][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.587][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 18:53:21.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 18:53:21.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.588][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:21.588][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:21.588][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.589][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.589][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 18:53:21.589][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.589][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.590][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.590][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 18:53:21.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.591][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:21.591][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:21.592][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.592][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.592][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:21.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:21.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.593][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-03 18:53:21.593][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 18:53:21.594][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.594][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.594][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 18:53:21.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 18:53:21.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.595][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 18:53:21.595][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 18:53:21.596][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.596][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.596][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 18:53:21.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 18:53:21.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.597][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 18:53:21.598][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 18:53:21.598][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.598][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.598][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 18:53:21.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 18:53:21.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.599][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.600][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.601][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.602][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.603][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.604][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.608][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.609][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.610][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.611][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:21.612][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2025-02-03 18:53:21.613][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.614][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.615][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:21.616][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:21.616][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:21.616][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:21.618][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:21.618][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:21.619][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:21.619][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:21.619][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2025-02-03 18:53:21.619][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-03 18:53:21.620][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176803".
biodb.TRACE[2025-02-03 18:53:21.620][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 18:53:21.621][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml".
biodb.DEBUG[2025-02-03 18:53:21.621][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-03 18:53:21.622][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-03 18:53:21.622][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-03 18:53:21.622][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:21.623][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:21.623][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:21.624][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:21.625][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:21.625][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:21.625][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:21.626][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.626][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.626][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.627][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.627][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.628][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 18:53:21.628][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 18:53:21.629][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.629][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.629][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 18:53:21.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 18:53:21.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.647][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 18:53:21.647][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 18:53:21.648][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.648][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.648][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 18:53:21.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 18:53:21.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.649][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 18:53:21.650][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 18:53:21.650][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.650][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.651][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 18:53:21.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 18:53:21.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.652][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 18:53:21.652][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 18:53:21.652][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.652][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.653][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 18:53:21.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 18:53:21.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.654][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:21.654][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:21.654][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.655][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.655][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 18:53:21.655][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.655][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.656][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.656][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 18:53:21.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.657][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:21.658][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:21.658][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.658][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.659][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:21.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:21.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.661][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-03 18:53:21.661][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 18:53:21.661][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.664][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.665][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 18:53:21.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 18:53:21.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.666][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 18:53:21.666][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 18:53:21.666][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.667][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.667][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 18:53:21.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 18:53:21.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.668][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 18:53:21.668][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 18:53:21.669][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.669][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.669][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 18:53:21.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 18:53:21.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.670][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.671][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.672][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.673][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.674][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.675][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.676][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.677][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.679][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.680][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:21.681][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2025-02-03 18:53:21.681][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.682][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.683][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:21.684][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:21.684][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:21.685][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:21.687][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:21.687][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:21.688][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:21.688][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:21.688][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2025-02-03 18:53:21.688][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-03 18:53:21.689][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176962".
biodb.TRACE[2025-02-03 18:53:21.689][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 18:53:21.690][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml".
biodb.DEBUG[2025-02-03 18:53:21.691][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-03 18:53:21.691][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-03 18:53:21.691][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-03 18:53:21.692][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:21.692][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:21.692][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:21.695][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:21.695][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:21.695][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:21.695][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:21.696][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.696][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.697][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.697][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.697][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.698][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 18:53:21.699][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 18:53:21.699][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.699][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.699][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 18:53:21.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 18:53:21.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.701][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 18:53:21.701][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 18:53:21.703][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.704][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.704][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 18:53:21.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 18:53:21.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.706][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 18:53:21.706][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 18:53:21.706][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.707][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.707][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 18:53:21.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 18:53:21.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.708][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 18:53:21.708][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 18:53:21.708][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.709][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.709][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 18:53:21.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 18:53:21.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.710][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:21.711][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:21.711][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.711][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.712][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 18:53:21.713][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.713][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.713][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.714][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 18:53:21.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.715][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:21.715][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:21.715][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.715][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.716][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:21.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:21.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.717][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-03 18:53:21.717][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 18:53:21.717][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.718][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.718][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 18:53:21.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 18:53:21.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.719][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 18:53:21.719][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 18:53:21.719][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.720][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.720][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 18:53:21.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 18:53:21.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.721][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 18:53:21.721][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 18:53:21.722][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.722][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.722][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 18:53:21.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 18:53:21.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.723][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.724][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.726][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.727][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.728][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.729][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.730][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.731][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.732][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.733][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:21.734][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2025-02-03 18:53:21.734][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.735][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.736][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:21.737][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:21.738][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:21.738][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:21.743][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:21.743][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:21.743][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:21.743][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:21.744][private$loadEntries] Creating entries from ids [1]: "198655".
biodb.DEBUG[2025-02-03 18:53:21.744][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-03 18:53:21.745][cch$loadFileContent] Trying to load 1 files from cache: [1]: "198655".
biodb.TRACE[2025-02-03 18:53:21.745][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 18:53:21.746][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/198655.xml".
biodb.DEBUG[2025-02-03 18:53:21.746][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-03 18:53:21.746][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-03 18:53:21.747][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-03 18:53:21.747][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:21.748][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:21.748][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:21.750][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:21.750][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:21.751][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:21.751][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:21.752][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.752][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.752][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.753][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.753][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.754][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 18:53:21.755][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 18:53:21.755][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.755][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.756][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 18:53:21.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 18:53:21.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.757][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 18:53:21.757][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 18:53:21.757][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.758][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.758][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 18:53:21.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 18:53:21.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.759][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 18:53:21.760][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 18:53:21.760][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.760][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.760][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 18:53:21.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 18:53:21.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.761][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 18:53:21.762][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 18:53:21.762][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.762][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.762][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 18:53:21.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 18:53:21.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.763][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:21.764][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:21.764][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.764][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.765][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 18:53:21.765][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.765][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.765][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.766][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 18:53:21.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.767][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:21.767][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:21.767][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.767][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.768][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:21.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:21.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.769][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-03 18:53:21.769][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 18:53:21.769][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.769][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.770][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 18:53:21.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 18:53:21.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.771][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 18:53:21.771][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 18:53:21.771][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.772][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.772][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 18:53:21.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 18:53:21.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.773][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 18:53:21.774][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 18:53:21.774][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.775][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.775][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 18:53:21.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 18:53:21.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.777][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.778][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.779][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.783][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.784][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.785][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.788][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.789][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.791][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.792][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:21.793][self$createEntryFromContent] Accession numbers: 198655.
biodb.TRACE[2025-02-03 18:53:21.793][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.795][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.797][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:21.798][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:21.798][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:21.798][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:21.800][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:21.800][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:21.800][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:21.801][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:21.801][private$loadEntries] Creating entries from ids [1]: "215045".
biodb.DEBUG[2025-02-03 18:53:21.801][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-03 18:53:21.802][cch$loadFileContent] Trying to load 1 files from cache: [1]: "215045".
biodb.TRACE[2025-02-03 18:53:21.802][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 18:53:21.803][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/215045.xml".
biodb.DEBUG[2025-02-03 18:53:21.803][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-03 18:53:21.804][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-03 18:53:21.804][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-03 18:53:21.804][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:21.805][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:21.805][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:21.807][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:21.807][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:21.808][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:21.808][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:21.809][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.809][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.810][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.810][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.810][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.811][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 18:53:21.812][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 18:53:21.812][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.812][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.813][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 18:53:21.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 18:53:21.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.814][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 18:53:21.814][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 18:53:21.814][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.815][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.815][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 18:53:21.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 18:53:21.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.816][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 18:53:21.816][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 18:53:21.817][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.817][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.817][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 18:53:21.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 18:53:21.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.818][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 18:53:21.819][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 18:53:21.819][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.819][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.820][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 18:53:21.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 18:53:21.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.821][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:21.821][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:21.821][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.822][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.825][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 18:53:21.826][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.826][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.826][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.826][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 18:53:21.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.830][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:21.830][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:21.831][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.831][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.831][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:21.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:21.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.832][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-03 18:53:21.833][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 18:53:21.833][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.833][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.833][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 18:53:21.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 18:53:21.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.835][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 18:53:21.835][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 18:53:21.835][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.835][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.836][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 18:53:21.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 18:53:21.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.837][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 18:53:21.837][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 18:53:21.838][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.838][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.838][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 18:53:21.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 18:53:21.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.840][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.841][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.842][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.843][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:21.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.844][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.845][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.846][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.847][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.848][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.849][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:21.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:21.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:21.851][self$createEntryFromContent] Accession numbers: 215045.
biodb.TRACE[2025-02-03 18:53:21.851][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.852][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.853][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:21.862][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[2025-02-03 18:53:21.863][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-03 18:53:21.863][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-02-03 18:53:21.864][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 18:53:21.864][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-02-03 18:53:21.865][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:21.866][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:21.866][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:21.868][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:21.868][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:21.868][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:21.869][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:21.869][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.873][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.874][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:21.875][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:21.875][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:21.875][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:21.877][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:21.877][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:21.878][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:21.878][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.TRACE[2025-02-03 18:53:21.878][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.879][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.880][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.881][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.882][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:21.883][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:21.884][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:21.884][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:21.885][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:21.886][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:21.886][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:21.886][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:21.886][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.888][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.889][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.890][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.891][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:21.892][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:21.892][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:21.892][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:21.894][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:21.894][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:21.894][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:21.894][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:21.895][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.896][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.897][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.898][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.899][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:21.900][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:21.900][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:21.900][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:21.902][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:21.902][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:21.903][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:21.903][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:21.903][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.904][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.905][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:21.910][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:21.911][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:21.911][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:21.913][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:21.914][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:21.914][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:21.914][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:21.915][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.916][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.917][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:21.918][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:21.918][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:21.918][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:21.920][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:21.921][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:21.921][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:21.921][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:21.921][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.923][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.924][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:21.925][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:21.925][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:21.925][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:21.927][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:21.927][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:21.927][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:21.928][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:21.928][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.929][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.930][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:21.932][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:21.932][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:21.932][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:21.938][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:21.938][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:21.939][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:21.939][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:21.939][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.940][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.941][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:21.942][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:21.943][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:21.943][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:21.945][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:21.945][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:21.945][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:21.945][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:21.946][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.947][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.948][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:21.949][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:21.949][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:21.949][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:21.951][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:21.951][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:21.951][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:21.952][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:21.952][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.953][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.957][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:21.958][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:21.958][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:21.958][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:21.960][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:21.960][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:21.961][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:21.961][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.TRACE[2025-02-03 18:53:21.961][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.962][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.963][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:21.965][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:21.965][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:21.965][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:21.967][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:21.967][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:21.967][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:21.968][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:21.968][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.969][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.970][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:21.971][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:21.971][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:21.971][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:21.973][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:21.974][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:21.974][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:21.974][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:21.974][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.975][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.982][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:21.983][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:21.984][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:21.984][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:21.986][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:21.986][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:21.986][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:21.987][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:21.987][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.988][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.989][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:21.990][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:21.990][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:21.990][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:21.992][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:21.992][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:21.993][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:21.993][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:21.993][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.994][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:21.995][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:21.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:21.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:21.996][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:21.997][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:21.997][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:21.999][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:21.999][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:21.999][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:22.002][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:22.002][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.004][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.005][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:22.006][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:22.006][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:22.006][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:22.008][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:22.008][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:22.009][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:22.009][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:22.009][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.010][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.011][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:22.012][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:22.012][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:22.013][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:22.014][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:22.015][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:22.015][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:22.015][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:22.015][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.017][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.018][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:22.019][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:22.019][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:22.019][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:22.021][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:22.021][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:22.021][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:22.021][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:22.022][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.023][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.024][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.030][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.031][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.032][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.033][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.034][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:22.050][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[2025-02-03 18:53:22.051][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-03 18:53:22.052][cch$loadFileContent] Trying to load 1 files from cache: [1]: "c5171beada848a87ef2ffa10427d9be3".
biodb.TRACE[2025-02-03 18:53:22.052][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 18:53:22.053][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c5171beada848a87ef2ffa10427d9be3.content".
biodb.DEBUG[2025-02-03 18:53:22.054][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[2025-02-03 18:53:22.055][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-03 18:53:22.055][cch$loadFileContent] Trying to load 1 files from cache: [1]: "750e63ff76a843f016511fa71c89113e".
biodb.TRACE[2025-02-03 18:53:22.055][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 18:53:22.056][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/750e63ff76a843f016511fa71c89113e.content".
biodb.DEBUG[2025-02-03 18:53:22.057][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:22.057][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:22.057][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:22.059][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:22.060][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:22.060][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:22.060][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:22.060][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2025-02-03 18:53:22.061][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-03 18:53:22.061][cch$loadFileContent] Trying to load 1 files from cache: [1]: "4648".
biodb.TRACE[2025-02-03 18:53:22.062][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 18:53:22.062][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml".
biodb.DEBUG[2025-02-03 18:53:22.063][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-03 18:53:22.063][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-03 18:53:22.063][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-03 18:53:22.064][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:22.064][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:22.064][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:22.066][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:22.066][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:22.067][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:22.067][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:22.068][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:22.068][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:22.068][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.069][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.069][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:22.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:22.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.070][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 18:53:22.071][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 18:53:22.071][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.071][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.072][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 18:53:22.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 18:53:22.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.073][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 18:53:22.073][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 18:53:22.074][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.074][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.074][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 18:53:22.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 18:53:22.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.075][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 18:53:22.076][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 18:53:22.076][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.076][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.077][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 18:53:22.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 18:53:22.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.078][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 18:53:22.078][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 18:53:22.078][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.079][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.079][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 18:53:22.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 18:53:22.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.080][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:22.080][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:22.081][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.081][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.081][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:22.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:22.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.082][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 18:53:22.082][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.083][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.083][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.083][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 18:53:22.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.084][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.087][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.088][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.088][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.089][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.090][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-03 18:53:22.090][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 18:53:22.090][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.091][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.091][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 18:53:22.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 18:53:22.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.092][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 18:53:22.092][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 18:53:22.093][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.093][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.093][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 18:53:22.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 18:53:22.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.094][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 18:53:22.095][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 18:53:22.095][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.095][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.095][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 18:53:22.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 18:53:22.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.096][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.097][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.098][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:22.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:22.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.099][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.100][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:22.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:22.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.101][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:22.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:22.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.103][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:22.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:22.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.104][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:22.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:22.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.105][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:22.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:22.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.106][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:22.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:22.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:22.107][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2025-02-03 18:53:22.108][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.109][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.110][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:22.111][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:22.111][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:22.111][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:22.113][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:22.114][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:22.114][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:22.114][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:22.115][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.116][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.117][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:22.118][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:22.118][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:22.118][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:22.121][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:22.121][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:22.121][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:22.121][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:22.122][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2025-02-03 18:53:22.122][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-03 18:53:22.122][cch$loadFileContent] Trying to load 1 files from cache: [1]: "62447".
biodb.TRACE[2025-02-03 18:53:22.123][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 18:53:22.123][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml".
biodb.DEBUG[2025-02-03 18:53:22.124][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-03 18:53:22.124][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-03 18:53:22.128][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-03 18:53:22.128][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:22.129][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:22.129][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:22.131][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:22.131][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:22.132][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:22.132][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:22.133][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:22.133][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:22.133][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.134][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.134][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:22.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:22.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.135][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 18:53:22.135][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 18:53:22.136][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.136][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.136][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 18:53:22.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 18:53:22.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.137][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 18:53:22.137][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 18:53:22.138][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.138][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.138][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 18:53:22.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 18:53:22.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.139][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 18:53:22.139][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 18:53:22.140][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.140][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.140][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 18:53:22.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 18:53:22.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.141][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 18:53:22.141][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 18:53:22.141][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.142][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.142][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 18:53:22.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 18:53:22.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.143][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:22.143][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:22.143][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.144][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.144][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 18:53:22.144][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.144][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.145][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.145][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 18:53:22.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.146][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.146][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.146][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.147][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.147][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.148][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-03 18:53:22.148][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 18:53:22.148][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.148][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.149][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 18:53:22.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 18:53:22.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.150][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 18:53:22.150][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 18:53:22.150][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.150][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.151][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 18:53:22.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 18:53:22.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.151][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 18:53:22.152][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 18:53:22.152][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.152][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.152][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 18:53:22.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 18:53:22.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.153][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.154][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.155][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:22.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:22.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.156][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.157][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:22.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:22.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.158][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:22.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:22.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.159][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:22.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:22.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.162][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:22.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:22.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.163][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:22.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:22.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.164][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:22.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:22.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:22.165][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2025-02-03 18:53:22.165][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.166][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.167][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:22.174][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[2025-02-03 18:53:22.175][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-03 18:53:22.175][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-02-03 18:53:22.175][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 18:53:22.176][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-02-03 18:53:22.176][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:22.177][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:22.177][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:22.178][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:22.179][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:22.179][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:22.179][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:22.179][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.180][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.181][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:22.182][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:22.182][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:22.183][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:22.184][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:22.184][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:22.184][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:22.185][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:22.185][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.186][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.187][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.188][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.188][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:22.189][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:22.190][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:22.190][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:22.191][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:22.191][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:22.192][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:22.192][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.TRACE[2025-02-03 18:53:22.192][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.193][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.194][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.197][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.198][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:22.213][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:22.213][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:22.214][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:22.224][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:22.224][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:22.225][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:22.225][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[2025-02-03 18:53:22.225][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.226][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.227][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.228][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.230][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:22.232][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:22.232][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:22.232][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:22.234][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:22.234][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:22.235][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:22.235][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:22.235][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.236][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.237][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:22.238][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:22.239][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:22.239][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:22.241][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:22.241][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:22.241][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:22.241][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:22.242][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.243][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.244][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:22.245][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:22.245][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:22.245][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:22.247][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:22.248][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:22.248][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:22.248][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[2025-02-03 18:53:22.249][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.250][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.251][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:22.252][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:22.253][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:22.253][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:22.254][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:22.255][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:22.255][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:22.255][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:22.256][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.257][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.260][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:22.262][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:22.263][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:22.263][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:22.265][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:22.265][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:22.265][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:22.266][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:22.266][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.267][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.268][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:22.269][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:22.269][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:22.270][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:22.271][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:22.271][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:22.272][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:22.272][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:22.272][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.273][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.274][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:22.275][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:22.276][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:22.276][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:22.277][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:22.278][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:22.278][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:22.278][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:22.279][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.280][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.281][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:22.282][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:22.282][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:22.282][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:22.284][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:22.284][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:22.284][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:22.285][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.TRACE[2025-02-03 18:53:22.285][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.286][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.287][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:22.288][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:22.288][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:22.288][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:22.290][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:22.291][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:22.291][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:22.291][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:22.291][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.292][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.293][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:22.294][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:22.295][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:22.295][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:22.297][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:22.297][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:22.297][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:22.297][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.TRACE[2025-02-03 18:53:22.301][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.303][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.304][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:22.305][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:22.305][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:22.305][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:22.307][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:22.308][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:22.308][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:22.308][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:22.308][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.310][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.311][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:22.312][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:22.312][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:22.312][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:22.314][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:22.314][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:22.314][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:22.314][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:22.315][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.316][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.317][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:22.318][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:22.318][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:22.318][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:22.320][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:22.320][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:22.320][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:22.320][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[2025-02-03 18:53:22.321][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.322][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.323][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:22.324][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:22.324][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:22.324][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:22.326][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:22.326][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:22.326][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:22.326][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:22.327][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.328][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.329][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:22.330][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:22.330][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:22.330][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:22.332][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:22.332][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:22.332][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:22.333][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:22.333][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.334][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.335][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:22.336][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:22.336][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:22.339][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:22.341][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:22.342][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:22.342][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:22.342][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:22.342][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.344][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.345][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:22.353][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[2025-02-03 18:53:22.354][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-03 18:53:22.355][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-02-03 18:53:22.355][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 18:53:22.356][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-02-03 18:53:22.357][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:22.357][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:22.357][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:22.359][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:22.360][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:22.360][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:22.360][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:22.360][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.362][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.363][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:22.364][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:22.364][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:22.364][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:22.366][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:22.366][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:22.367][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:22.367][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:22.367][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.368][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.369][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.370][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.371][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:22.372][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:22.372][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:22.373][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:22.375][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:22.375][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:22.375][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:22.375][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:22.376][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.377][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.378][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.379][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.380][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:22.384][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:22.384][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:22.384][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:22.386][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:22.386][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:22.387][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:22.387][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.TRACE[2025-02-03 18:53:22.387][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.388][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.390][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.391][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.392][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:22.393][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:22.393][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:22.393][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:22.395][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:22.396][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:22.396][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:22.396][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:22.397][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.398][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.399][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:22.400][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:22.400][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:22.400][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:22.402][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:22.402][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:22.403][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:22.404][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:22.404][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.405][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.406][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:22.407][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:22.408][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:22.408][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:22.410][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:22.410][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:22.410][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:22.410][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.TRACE[2025-02-03 18:53:22.411][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.412][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.413][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:22.414][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:22.414][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:22.414][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:22.416][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:22.416][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:22.417][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:22.417][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[2025-02-03 18:53:22.417][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.418][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.419][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:22.420][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:22.421][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:22.421][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:22.425][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:22.426][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:22.426][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:22.426][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:22.426][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.427][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.429][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:22.430][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:22.430][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:22.430][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:22.432][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:22.432][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:22.432][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:22.432][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:22.433][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.434][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.435][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:22.436][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:22.436][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:22.436][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:22.438][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:22.438][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:22.438][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:22.438][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:22.439][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.440][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.441][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:22.442][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:22.442][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:22.442][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:22.444][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:22.444][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:22.444][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:22.445][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.TRACE[2025-02-03 18:53:22.445][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.446][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.447][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:22.448][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:22.448][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:22.448][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:22.450][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:22.451][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:22.451][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:22.451][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.TRACE[2025-02-03 18:53:22.452][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.453][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.454][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:22.455][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:22.456][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:22.456][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:22.458][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:22.458][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:22.458][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:22.458][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:22.459][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.460][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.464][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:22.465][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:22.465][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:22.466][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:22.468][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:22.468][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:22.468][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:22.469][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:22.469][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.470][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.471][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:22.473][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:22.473][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:22.473][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:22.475][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:22.475][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:22.475][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:22.476][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:22.476][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.477][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.478][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:22.479][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:22.479][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:22.480][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:22.481][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:22.482][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:22.482][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:22.482][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:22.482][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.483][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.484][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:22.486][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:22.486][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:22.486][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:22.488][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:22.488][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:22.488][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:22.488][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.TRACE[2025-02-03 18:53:22.489][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.490][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.491][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:22.492][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:22.492][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:22.492][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:22.494][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:22.494][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:22.494][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:22.495][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:22.495][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.496][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.497][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:22.498][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:22.498][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:22.499][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:22.500][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:22.500][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:22.503][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:22.503][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:22.504][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.505][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.506][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.512][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-02-03 18:53:22.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-02-03 18:53:22.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-02-03 18:53:22.516][biodb::testThat]
biodb.INFO [2025-02-03 18:53:22.516][biodb::testThat] Running test function test_annotateMzValues_input_vector (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2025-02-03 18:53:22.516][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-03 18:53:22.517][biodb::testThat]
biodb.TRACE[2025-02-03 18:53:22.518][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-02-03 18:53:22.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-02-03 18:53:22.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.519][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.520][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.521][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.522][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:22.524][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:22.524][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:22.524][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:22.526][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:22.526][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:22.527][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:22.527][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[2025-02-03 18:53:22.528][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[2025-02-03 18:53:22.529][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-03 18:53:22.529][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-02-03 18:53:22.530][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 18:53:22.530][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-02-03 18:53:22.531][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:22.531][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:22.531][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:22.533][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:22.533][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:22.534][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:22.534][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.TRACE[2025-02-03 18:53:22.534][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.535][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.536][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:22.537][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[2025-02-03 18:53:22.538][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-03 18:53:22.539][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-02-03 18:53:22.539][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 18:53:22.540][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-02-03 18:53:22.540][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:22.540][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:22.541][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:22.542][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:22.543][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:22.545][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:22.546][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:22.546][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.548][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.549][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:22.550][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:22.550][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:22.550][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:22.552][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:22.552][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:22.552][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:22.552][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[2025-02-03 18:53:22.553][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.554][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.555][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:22.556][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-02-03 18:53:22.556][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:22.557][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:22.557][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:22.558][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:22.559][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:22.559][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:22.559][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:22.560][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.561][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.562][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 18:53:22.562][private$selectFields]
biodb.TRACE[2025-02-03 18:53:22.562][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-03 18:53:22.562][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-03 18:53:22.563][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 18:53:22.563][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.563][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.563][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.564][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.564][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.564][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.564][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.565][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.565][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 18:53:22.565][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 18:53:22.565][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.566][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.566][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.566][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.566][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-03 18:53:22.567][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.568][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.568][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.572][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-02-03 18:53:22.573][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:22.573][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:22.573][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:22.575][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:22.575][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:22.575][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:22.576][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:22.576][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.577][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.578][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 18:53:22.578][private$selectFields]
biodb.TRACE[2025-02-03 18:53:22.579][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-03 18:53:22.579][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-03 18:53:22.581][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 18:53:22.582][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.582][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.582][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.583][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.583][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.583][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.584][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.584][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.584][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 18:53:22.585][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 18:53:22.585][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.585][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.585][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.586][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.586][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-03 18:53:22.586][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.587][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.588][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.589][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-02-03 18:53:22.590][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:22.590][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:22.590][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:22.592][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:22.592][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:22.592][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:22.592][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:22.593][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.594][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.595][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 18:53:22.595][private$selectFields]
biodb.TRACE[2025-02-03 18:53:22.595][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-03 18:53:22.596][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-03 18:53:22.596][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 18:53:22.596][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.596][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.596][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.597][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.597][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.597][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.597][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.598][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.598][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 18:53:22.598][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 18:53:22.598][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.599][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.599][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.599][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.599][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-03 18:53:22.600][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.601][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.602][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.603][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-02-03 18:53:22.603][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-02-03 18:53:22.603][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-02-03 18:53:22.606][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.608][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.609][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.610][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:22.631][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:22.632][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:22.632][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:22.634][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:22.634][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:22.634][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:22.635][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[2025-02-03 18:53:22.636][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[2025-02-03 18:53:22.637][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-03 18:53:22.637][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2025-02-03 18:53:22.638][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 18:53:22.638][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2025-02-03 18:53:22.640][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[2025-02-03 18:53:22.641][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-03 18:53:22.641][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2025-02-03 18:53:22.641][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 18:53:22.642][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2025-02-03 18:53:22.643][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:22.644][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:22.644][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:22.646][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:22.646][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:22.646][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:22.647][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:22.647][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.648][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.649][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:22.650][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:22.650][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:22.651][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:22.652][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:22.653][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:22.653][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:22.654][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:22.654][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.655][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.656][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:22.661][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:22.661][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:22.661][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:22.663][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:22.664][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:22.664][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:22.664][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:22.665][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.666][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.667][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:22.676][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-02-03 18:53:22.684][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:22.684][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:22.685][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:22.687][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:22.687][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:22.687][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:22.688][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:22.688][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.689][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.690][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 18:53:22.691][private$selectFields]
biodb.TRACE[2025-02-03 18:53:22.691][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-03 18:53:22.692][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-03 18:53:22.692][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 18:53:22.692][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.692][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.693][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.693][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.693][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.693][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.694][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.694][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.694][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 18:53:22.694][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 18:53:22.695][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.695][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.698][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.698][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.699][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-03 18:53:22.699][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.700][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.701][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.703][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-02-03 18:53:22.703][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:22.703][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:22.703][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:22.705][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:22.706][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:22.706][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:22.706][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:22.710][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.712][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.720][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 18:53:22.720][private$selectFields]
biodb.TRACE[2025-02-03 18:53:22.720][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-03 18:53:22.721][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-03 18:53:22.721][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 18:53:22.721][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.721][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.722][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.722][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.722][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.722][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.723][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.723][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.723][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 18:53:22.727][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 18:53:22.727][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.727][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.728][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.728][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.728][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-03 18:53:22.729][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.730][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.731][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.735][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-02-03 18:53:22.736][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:22.736][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:22.737][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:22.739][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:22.739][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:22.740][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:22.740][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:22.740][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.741][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.742][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 18:53:22.743][private$selectFields]
biodb.TRACE[2025-02-03 18:53:22.743][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-03 18:53:22.743][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-03 18:53:22.744][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 18:53:22.744][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.744][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.745][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.745][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.745][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.745][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.746][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.746][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.746][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 18:53:22.746][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 18:53:22.747][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.747][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.747][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.747][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.748][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-03 18:53:22.748][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.749][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.750][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.751][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-02-03 18:53:22.751][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-02-03 18:53:22.752][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-02-03 18:53:22.755][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-02-03 18:53:22.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-02-03 18:53:22.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-02-03 18:53:22.757][biodb::testThat]
biodb.INFO [2025-02-03 18:53:22.758][biodb::testThat] Running test function test_annotateMzValues_ppm_tol (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2025-02-03 18:53:22.758][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-03 18:53:22.758][biodb::testThat]
biodb.TRACE[2025-02-03 18:53:22.759][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-02-03 18:53:22.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-02-03 18:53:22.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.760][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.761][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.762][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.763][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:22.765][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:22.765][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:22.766][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:22.768][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:22.768][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:22.768][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:22.768][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[2025-02-03 18:53:22.769][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[2025-02-03 18:53:22.770][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-03 18:53:22.771][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-02-03 18:53:22.771][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 18:53:22.771][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-02-03 18:53:22.772][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:22.772][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:22.773][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:22.850][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:22.850][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:22.851][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:22.851][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:22.852][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.853][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.854][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:22.855][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[2025-02-03 18:53:22.856][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-03 18:53:22.856][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-02-03 18:53:22.857][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 18:53:22.857][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-02-03 18:53:22.858][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:22.858][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:22.859][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:22.860][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:22.861][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:22.861][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:22.861][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:22.862][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.863][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.864][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:22.865][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:22.865][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:22.865][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:22.867][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:22.867][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:22.868][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:22.868][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:22.868][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.870][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.871][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:22.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:22.872][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-02-03 18:53:22.872][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:22.872][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:22.873][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:22.874][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:22.875][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:22.875][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:22.875][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:22.876][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.877][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.878][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 18:53:22.878][private$selectFields]
biodb.TRACE[2025-02-03 18:53:22.878][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-03 18:53:22.878][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-03 18:53:22.879][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 18:53:22.879][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.879][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.879][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.879][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.880][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.880][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.880][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.880][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.881][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 18:53:22.881][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 18:53:22.881][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.881][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.882][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.882][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.882][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-03 18:53:22.882][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.883][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.884][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.885][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-02-03 18:53:22.886][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:22.886][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:22.886][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:22.888][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:22.888][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:22.888][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:22.889][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:22.889][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.890][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.891][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 18:53:22.891][private$selectFields]
biodb.TRACE[2025-02-03 18:53:22.892][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-03 18:53:22.892][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-03 18:53:22.892][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 18:53:22.892][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.893][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.893][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.893][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.894][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.894][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.894][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.894][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.895][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 18:53:22.895][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 18:53:22.895][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.896][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.896][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.896][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.896][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-03 18:53:22.897][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.898][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.899][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.900][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-02-03 18:53:22.900][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:22.901][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:22.901][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:22.903][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:22.903][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:22.903][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:22.904][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[2025-02-03 18:53:22.904][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.905][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.906][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 18:53:22.907][private$selectFields]
biodb.TRACE[2025-02-03 18:53:22.907][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-03 18:53:22.907][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-03 18:53:22.907][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 18:53:22.908][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.908][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.908][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.908][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.909][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.909][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.909][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.910][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.910][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 18:53:22.910][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 18:53:22.910][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.911][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.911][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.911][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.911][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-03 18:53:22.912][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.913][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.914][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.915][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-02-03 18:53:22.916][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-02-03 18:53:22.916][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-02-03 18:53:22.919][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.920][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.921][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.922][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:22.924][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:22.925][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:22.925][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:22.927][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:22.927][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:22.927][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:22.928][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:22.928][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[2025-02-03 18:53:22.930][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-03 18:53:22.930][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2025-02-03 18:53:22.930][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 18:53:22.931][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2025-02-03 18:53:22.932][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[2025-02-03 18:53:22.933][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-03 18:53:22.933][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2025-02-03 18:53:22.934][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 18:53:22.934][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2025-02-03 18:53:22.935][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:22.935][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:22.936][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:22.937][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:22.938][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:22.938][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:22.938][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:22.939][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.940][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.941][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:22.942][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:22.942][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:22.943][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:22.944][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:22.945][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:22.945][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:22.945][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:22.945][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.947][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.948][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:22.949][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:22.949][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:22.949][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:22.951][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:22.951][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:22.952][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:22.952][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:22.955][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.956][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.957][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:22.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:22.958][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-02-03 18:53:22.958][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:22.959][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:22.959][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:22.961][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:22.961][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:22.961][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:22.961][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.TRACE[2025-02-03 18:53:22.962][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.963][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.964][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 18:53:22.964][private$selectFields]
biodb.TRACE[2025-02-03 18:53:22.964][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-03 18:53:22.964][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-03 18:53:22.965][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 18:53:22.965][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.965][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.965][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.966][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.966][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.966][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.966][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.967][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.967][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 18:53:22.967][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 18:53:22.967][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.968][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.968][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.968][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.968][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-03 18:53:22.968][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.969][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.970][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.972][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-02-03 18:53:22.972][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:22.972][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:22.972][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:22.974][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:22.974][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:22.974][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:22.975][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:22.975][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.976][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.977][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 18:53:22.977][private$selectFields]
biodb.TRACE[2025-02-03 18:53:22.977][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-03 18:53:22.978][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-03 18:53:22.978][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 18:53:22.978][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.978][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.979][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.979][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.979][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.979][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.980][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.980][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.980][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 18:53:22.980][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 18:53:22.981][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.981][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.981][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.981][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.982][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-03 18:53:22.982][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.983][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.984][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.985][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-02-03 18:53:22.985][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:22.985][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:22.986][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:22.987][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:22.988][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:22.988][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:22.988][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[2025-02-03 18:53:22.988][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.989][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.990][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 18:53:22.991][private$selectFields]
biodb.TRACE[2025-02-03 18:53:22.991][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-03 18:53:22.991][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-03 18:53:22.991][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 18:53:22.992][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.992][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.992][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.992][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.993][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.993][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.993][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.993][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.994][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 18:53:22.994][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 18:53:22.994][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.994][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.995][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.995][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.995][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-03 18:53:22.995][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.997][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.998][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:22.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:22.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:22.999][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-02-03 18:53:22.999][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-02-03 18:53:22.999][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-02-03 18:53:23.002][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-02-03 18:53:23.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-02-03 18:53:23.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-02-03 18:53:23.004][biodb::testThat]
biodb.INFO [2025-02-03 18:53:23.005][biodb::testThat] Running test function test_annotateMzValues_input_dataframe_untouched (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2025-02-03 18:53:23.005][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-03 18:53:23.005][biodb::testThat]
biodb.TRACE[2025-02-03 18:53:23.006][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-02-03 18:53:23.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-02-03 18:53:23.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.007][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:23.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:23.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.008][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:23.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:23.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.009][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:23.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:23.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.010][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:23.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:23.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:23.013][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:23.013][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.013][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.015][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.015][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.015][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.016][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.017][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[2025-02-03 18:53:23.018][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-03 18:53:23.018][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-02-03 18:53:23.018][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 18:53:23.019][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-02-03 18:53:23.019][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:23.020][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.020][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.022][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.022][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.022][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.022][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:23.023][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:23.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:23.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.024][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:23.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:23.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.025][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:23.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:23.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:23.026][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[2025-02-03 18:53:23.027][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-03 18:53:23.028][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-02-03 18:53:23.028][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 18:53:23.028][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-02-03 18:53:23.029][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:23.029][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.029][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.031][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.032][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.032][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.032][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:23.032][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:23.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:23.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.034][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:23.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:23.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.035][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:23.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:23.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:23.036][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:23.036][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.036][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.038][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.038][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.038][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.039][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:23.039][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:23.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:23.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.040][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:23.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:23.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.041][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:23.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:23.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:23.042][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-02-03 18:53:23.043][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:23.043][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.043][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.045][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.045][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.045][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.045][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[2025-02-03 18:53:23.046][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.047][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.048][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 18:53:23.048][private$selectFields]
biodb.TRACE[2025-02-03 18:53:23.048][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-03 18:53:23.049][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-03 18:53:23.049][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 18:53:23.049][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.049][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.050][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.052][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.052][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.053][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.053][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.053][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.053][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 18:53:23.054][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 18:53:23.054][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.054][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.054][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.055][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.055][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-03 18:53:23.055][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.056][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.057][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.058][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-02-03 18:53:23.058][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:23.059][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.059][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.061][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.061][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.061][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.061][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:23.062][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.063][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.064][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 18:53:23.064][private$selectFields]
biodb.TRACE[2025-02-03 18:53:23.064][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-03 18:53:23.064][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-03 18:53:23.065][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 18:53:23.065][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.065][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.065][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.066][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.066][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.066][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.066][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.067][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.067][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 18:53:23.067][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 18:53:23.067][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.067][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.068][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.068][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.068][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-03 18:53:23.068][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.069][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.070][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.071][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-02-03 18:53:23.072][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:23.072][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.072][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.074][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.074][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.074][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.075][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:23.075][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.076][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.077][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 18:53:23.077][private$selectFields]
biodb.TRACE[2025-02-03 18:53:23.077][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-03 18:53:23.078][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-03 18:53:23.078][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 18:53:23.078][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.078][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.079][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.079][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.079][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.079][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.080][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.080][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.080][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 18:53:23.080][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 18:53:23.081][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.081][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.081][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.081][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.082][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-03 18:53:23.082][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.083][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.084][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.085][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-02-03 18:53:23.085][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-02-03 18:53:23.085][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-02-03 18:53:23.092][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:23.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:23.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.093][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:23.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:23.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.094][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:23.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:23.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.095][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:23.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:23.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:23.097][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:23.098][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.098][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.100][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.100][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.100][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.100][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.101][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[2025-02-03 18:53:23.102][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-03 18:53:23.103][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2025-02-03 18:53:23.103][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 18:53:23.103][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2025-02-03 18:53:23.104][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[2025-02-03 18:53:23.105][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-03 18:53:23.106][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2025-02-03 18:53:23.106][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 18:53:23.106][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2025-02-03 18:53:23.107][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:23.107][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.108][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.109][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.110][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.110][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.110][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:23.110][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:23.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:23.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.112][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:23.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:23.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.113][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:23.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:23.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:23.114][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:23.114][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.114][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.116][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.116][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.116][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.116][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:23.117][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:23.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:23.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.118][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:23.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:23.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.119][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:23.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:23.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:23.120][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:23.120][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.120][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.122][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.122][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.122][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.123][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:23.123][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:23.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:23.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.124][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:23.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:23.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.125][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:23.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:23.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:23.126][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-02-03 18:53:23.127][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:23.127][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.127][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.129][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.129][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.129][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.130][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:23.130][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.131][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.132][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 18:53:23.132][private$selectFields]
biodb.TRACE[2025-02-03 18:53:23.132][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-03 18:53:23.133][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-03 18:53:23.133][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 18:53:23.133][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.133][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.134][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.134][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.134][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.134][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.135][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.135][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.135][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 18:53:23.135][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 18:53:23.136][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.136][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.136][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.136][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.137][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-03 18:53:23.137][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.138][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.139][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.140][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-02-03 18:53:23.140][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:23.140][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.141][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.143][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.143][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.143][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.144][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:23.144][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.145][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.146][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 18:53:23.146][private$selectFields]
biodb.TRACE[2025-02-03 18:53:23.149][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-03 18:53:23.149][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-03 18:53:23.150][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 18:53:23.150][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.150][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.151][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.151][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.151][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.151][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.152][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.152][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.152][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 18:53:23.152][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 18:53:23.153][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.153][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.153][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.153][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.154][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-03 18:53:23.154][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.155][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.156][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.157][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-02-03 18:53:23.158][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:23.158][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.158][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.160][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.160][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.160][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.161][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:23.161][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.162][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.163][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 18:53:23.163][private$selectFields]
biodb.TRACE[2025-02-03 18:53:23.164][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-02-03 18:53:23.164][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-02-03 18:53:23.164][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 18:53:23.164][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.165][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.165][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.165][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.165][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.166][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.166][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.166][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.166][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 18:53:23.167][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-02-03 18:53:23.167][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.167][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.167][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.168][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.168][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-02-03 18:53:23.168][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.169][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.170][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.171][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-02-03 18:53:23.171][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-02-03 18:53:23.172][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-02-03 18:53:23.178][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-02-03 18:53:23.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-02-03 18:53:23.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-02-03 18:53:23.181][biodb::testThat]
biodb.INFO [2025-02-03 18:53:23.181][biodb::testThat] Running test function test.wrong.entry (" Wrong entry gives NULL ").
biodb.INFO [2025-02-03 18:53:23.181][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-03 18:53:23.181][biodb::testThat]
biodb.DEBUG[2025-02-03 18:53:23.182][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-02-03 18:53:23.182][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-03 18:53:23.183][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2025-02-03 18:53:23.183][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 18:53:23.184][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml".
biodb.DEBUG[2025-02-03 18:53:23.184][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-03 18:53:23.184][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-03 18:53:23.185][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-03 18:53:23.185][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:23.185][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.186][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.187][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.188][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.188][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.188][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:23.189][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:23.189][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:23.190][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.190][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.190][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:23.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:23.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.191][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 18:53:23.192][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 18:53:23.192][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.192][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.192][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 18:53:23.193][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 18:53:23.193][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.193][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.194][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 18:53:23.194][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 18:53:23.194][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.194][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.195][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 18:53:23.195][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 18:53:23.195][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.195][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.196][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:23.196][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:23.196][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.196][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.197][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 18:53:23.197][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:23.197][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.198][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.198][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:23.198][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:23.198][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.199][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.199][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-03 18:53:23.199][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 18:53:23.199][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.200][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.200][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 18:53:23.200][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 18:53:23.200][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.201][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.201][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 18:53:23.201][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 18:53:23.202][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.202][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.202][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.203][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.204][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:23.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:23.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.205][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.206][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:23.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:23.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.207][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:23.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:23.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.208][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:23.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:23.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.209][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:23.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:23.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.210][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:23.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:23.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.211][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:23.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:23.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:23.212][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2025-02-03 18:53:23.213][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-02-03 18:53:23.216][biodb::testThat]
biodb.INFO [2025-02-03 18:53:23.216][biodb::testThat] Running test function test.wrong.entry.among.good.ones (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-02-03 18:53:23.216][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-03 18:53:23.217][biodb::testThat]
biodb.DEBUG[2025-02-03 18:53:23.220][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2025-02-03 18:53:23.221][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2025-02-03 18:53:23.221][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
biodb.TRACE[2025-02-03 18:53:23.222][cch$loadFileContent] Trying to load 3 files from cache: [3]: "WRONGB, 2528, 7799".
biodb.TRACE[2025-02-03 18:53:23.223][cch$loadFileContent] file.exist = [3]: "TRUE, TRUE, TRUE".
biodb.TRACE[2025-02-03 18:53:23.224][loadFileContents] Loaded 3 files from cache: [3]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGB.xml, /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml, /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml".
biodb.DEBUG[2025-02-03 18:53:23.224][conn$getEntryContent] 3 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-03 18:53:23.225][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2025-02-03 18:53:23.225][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2025-02-03 18:53:23.226][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:23.226][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.226][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.228][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.228][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.229][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.229][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:23.230][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:23.230][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:23.230][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.231][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.231][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:23.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:23.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.232][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 18:53:23.233][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 18:53:23.233][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.233][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.234][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 18:53:23.234][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 18:53:23.234][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.235][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.235][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 18:53:23.235][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 18:53:23.236][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.236][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.236][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 18:53:23.236][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 18:53:23.237][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.237][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.237][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:23.238][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:23.238][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.238][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.238][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 18:53:23.239][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:23.239][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.240][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.240][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:23.240][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:23.241][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.241][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.241][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-03 18:53:23.242][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 18:53:23.242][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.242][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.242][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 18:53:23.243][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 18:53:23.243][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.243][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.244][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 18:53:23.244][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 18:53:23.244][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.244][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.245][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.246][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.247][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:23.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:23.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.248][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.249][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:23.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:23.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.252][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:23.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:23.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.253][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:23.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:23.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:23.255][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:23.255][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.255][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.257][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.258][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.258][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.258][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[2025-02-03 18:53:23.259][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:23.259][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:23.259][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.260][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.260][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:23.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:23.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.261][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 18:53:23.262][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 18:53:23.262][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.262][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.263][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 18:53:23.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 18:53:23.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.264][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 18:53:23.264][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 18:53:23.264][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.265][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.265][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 18:53:23.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 18:53:23.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.266][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 18:53:23.266][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 18:53:23.267][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.267][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.267][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 18:53:23.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 18:53:23.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.268][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 18:53:23.269][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 18:53:23.269][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.269][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.269][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 18:53:23.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 18:53:23.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.270][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:23.271][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:23.271][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.271][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.271][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:23.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:23.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.273][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 18:53:23.274][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:23.274][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.275][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.275][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 18:53:23.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:23.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.276][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:23.276][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:23.277][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.277][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.277][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:23.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:23.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.279][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-03 18:53:23.279][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 18:53:23.279][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.280][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.280][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 18:53:23.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 18:53:23.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.281][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 18:53:23.281][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 18:53:23.282][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.282][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.282][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 18:53:23.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 18:53:23.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.283][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 18:53:23.284][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 18:53:23.284][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.284][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.285][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 18:53:23.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 18:53:23.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.286][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.287][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.288][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:23.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:23.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.289][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.290][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:23.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:23.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.291][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:23.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:23.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.292][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:23.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:23.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:23.294][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:23.294][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.294][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.296][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.296][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.297][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.297][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.TRACE[2025-02-03 18:53:23.298][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:23.298][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:23.299][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.299][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.299][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:23.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:23.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.300][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 18:53:23.301][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 18:53:23.301][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.301][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.301][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 18:53:23.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 18:53:23.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.302][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 18:53:23.303][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 18:53:23.303][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.303][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.304][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 18:53:23.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 18:53:23.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.305][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 18:53:23.305][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 18:53:23.305][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.305][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.306][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 18:53:23.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 18:53:23.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.307][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 18:53:23.307][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 18:53:23.307][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.307][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.308][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 18:53:23.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 18:53:23.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.309][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:23.309][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:23.309][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.310][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.310][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:23.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:23.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.311][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 18:53:23.311][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:23.312][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.312][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.312][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 18:53:23.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:23.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.313][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:23.314][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:23.314][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.314][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.315][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:23.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:23.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.316][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-03 18:53:23.316][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 18:53:23.316][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.316][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.317][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 18:53:23.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 18:53:23.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.318][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 18:53:23.320][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 18:53:23.320][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.321][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.321][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 18:53:23.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 18:53:23.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.322][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 18:53:23.322][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 18:53:23.323][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.323][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.323][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 18:53:23.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 18:53:23.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.324][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.326][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.327][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:23.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:23.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.328][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:23.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.329][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:23.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:23.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.330][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:23.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:23.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.331][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:23.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:23.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.332][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:23.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:23.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.333][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:23.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:23.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.334][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:23.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:23.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.335][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:23.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:23.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.336][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:23.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:23.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.337][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:23.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:23.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.338][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:23.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:23.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.339][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:23.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:23.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.340][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:23.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:23.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:23.341][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2025-02-03 18:53:23.342][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-02-03 18:53:23.342][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2025-02-03 18:53:23.347][biodb::testThat]
biodb.INFO [2025-02-03 18:53:23.347][biodb::testThat] Running test function test.peak.table (" The peak table is correct. ").
biodb.INFO [2025-02-03 18:53:23.347][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-03 18:53:23.348][biodb::testThat]
biodb.INFO [2025-02-03 18:53:23.358][biodb::testThat]
biodb.INFO [2025-02-03 18:53:23.359][biodb::testThat] Running test function test.nb.entries (" Nb entries is positive. ").
biodb.INFO [2025-02-03 18:53:23.359][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-03 18:53:23.359][biodb::testThat]
biodb.INFO [2025-02-03 18:53:23.362][biodb::testThat]
biodb.INFO [2025-02-03 18:53:23.362][biodb::testThat] Running test function test.entry.ids (" We can get a list of entry ids. ").
biodb.INFO [2025-02-03 18:53:23.363][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-03 18:53:23.363][biodb::testThat]
biodb.DEBUG[2025-02-03 18:53:23.364][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[2025-02-03 18:53:23.365][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-03 18:53:23.365][cch$loadFileContent] Trying to load 1 files from cache: [1]: "aed2cd6d5d221333c0a30a9f8dbc41b4".
biodb.TRACE[2025-02-03 18:53:23.366][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 18:53:23.367][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/aed2cd6d5d221333c0a30a9f8dbc41b4.content".
biodb.TRACE[2025-02-03 18:53:23.371][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-03 18:53:23.371][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 18:53:23.371][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.372][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:23.372][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:23.372][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:23.372][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:23.373][ef$get] fields variable is a list.
biodb.INFO [2025-02-03 18:53:23.373][biodb::testThat]
biodb.INFO [2025-02-03 18:53:23.373][biodb::testThat] Running test function test.annotateMzValues (" annotateMzValues() works correctly. ").
biodb.INFO [2025-02-03 18:53:23.374][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-03 18:53:23.374][biodb::testThat]
biodb.ERROR[2025-02-03 18:53:23.378][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2025-02-03 18:53:23.384][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2025-02-03 18:53:23.388][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-02-03 18:53:23.389][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-02-03 18:53:23.389][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-02-03 18:53:23.389][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-02-03 18:53:23.389][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.390][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.390][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.390][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.390][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.391][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.INFO [2025-02-03 18:53:23.394][biodb::testContext]
biodb.INFO [2025-02-03 18:53:23.395][biodb::testContext] ********************************************************************************
biodb.INFO [2025-02-03 18:53:23.395][biodb::testContext] Test context - Test conversions
biodb.INFO [2025-02-03 18:53:23.395][biodb::testContext] ********************************************************************************
biodb.INFO [2025-02-03 18:53:23.396][biodb::testContext]
biodb.INFO [2025-02-03 18:53:23.396][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.15.0.
biodb.DEBUG[2025-02-03 18:53:23.397][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-02-03 18:53:23.398][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-02-03 18:53:23.399][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-02-03 18:53:23.399][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-02-03 18:53:23.399][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.399][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.400][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.400][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-02-03 18:53:23.400][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-02-03 18:53:23.400][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.401][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.401][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[2025-02-03 18:53:23.401][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-02-03 18:53:23.401][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-02-03 18:53:23.402][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.402][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.402][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.402][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-02-03 18:53:23.402][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-02-03 18:53:23.403][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-02-03 18:53:23.403][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.403][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.403][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.404][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-02-03 18:53:23.404][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-02-03 18:53:23.404][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-02-03 18:53:23.404][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.404][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.405][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.405][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-02-03 18:53:23.405][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-02-03 18:53:23.405][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.406][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.406][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.406][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-02-03 18:53:23.406][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-02-03 18:53:23.406][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-02-03 18:53:23.407][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.407][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.407][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.407][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-02-03 18:53:23.408][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-02-03 18:53:23.408][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.408][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.408][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.408][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-02-03 18:53:23.409][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-02-03 18:53:23.409][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-02-03 18:53:23.409][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.409][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.410][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.410][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-02-03 18:53:23.410][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-02-03 18:53:23.410][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-02-03 18:53:23.410][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-02-03 18:53:23.411][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-02-03 18:53:23.411][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-02-03 18:53:23.411][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.411][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.412][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[2025-02-03 18:53:23.412][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-02-03 18:53:23.412][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-02-03 18:53:23.412][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.412][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.413][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.413][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-02-03 18:53:23.413][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-02-03 18:53:23.413][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.414][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.414][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.414][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-02-03 18:53:23.414][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-02-03 18:53:23.414][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.415][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.415][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.415][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-02-03 18:53:23.415][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-02-03 18:53:23.415][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.416][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.416][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.416][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-02-03 18:53:23.416][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-02-03 18:53:23.417][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.417][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.417][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.417][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-02-03 18:53:23.417][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-02-03 18:53:23.423][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-02-03 18:53:23.424][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.424][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.425][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.425][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-02-03 18:53:23.425][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-02-03 18:53:23.426][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-02-03 18:53:23.426][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.426][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.426][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.427][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-02-03 18:53:23.427][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-02-03 18:53:23.427][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-02-03 18:53:23.428][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:23.428][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-03 18:53:23.428][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:23.429][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-03 18:53:23.429][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-03 18:53:23.429][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-03 18:53:23.430][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-02-03 18:53:23.430][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-03 18:53:23.430][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:23.430][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-02-03 18:53:23.431][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-03 18:53:23.431][self$setPropertyValue]
biodb.DEBUG[2025-02-03 18:53:23.431][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:23.431][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-02-03 18:53:23.431][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-02-03 18:53:23.431][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-02-03 18:53:23.431][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-02-03 18:53:23.431][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-02-03 18:53:23.432][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-03 18:53:23.432][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 18:53:23.432][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 18:53:23.433][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-03 18:53:23.433][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 18:53:23.433][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 18:53:23.433][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-03 18:53:23.433][self$setPropertyValue]
biodb.DEBUG[2025-02-03 18:53:23.434][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-03 18:53:23.434][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-03 18:53:23.434][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-03 18:53:23.434][self$setPropertyValue]
biodb.DEBUG[2025-02-03 18:53:23.435][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-02-03 18:53:23.435][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-02-03 18:53:23.436][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-02-03 18:53:23.436][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:23.436][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-03 18:53:23.436][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:23.437][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-03 18:53:23.437][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-03 18:53:23.437][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-03 18:53:23.437][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-02-03 18:53:23.438][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-03 18:53:23.438][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:23.438][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-02-03 18:53:23.438][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-03 18:53:23.439][self$setPropertyValue]
biodb.DEBUG[2025-02-03 18:53:23.439][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:23.439][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-02-03 18:53:23.439][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-02-03 18:53:23.439][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-02-03 18:53:23.439][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-02-03 18:53:23.439][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-02-03 18:53:23.439][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-03 18:53:23.440][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 18:53:23.440][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 18:53:23.440][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-03 18:53:23.440][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 18:53:23.441][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 18:53:23.441][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-03 18:53:23.441][self$setPropertyValue]
biodb.DEBUG[2025-02-03 18:53:23.442][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-03 18:53:23.442][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-03 18:53:23.442][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-03 18:53:23.442][self$setPropertyValue]
biodb.DEBUG[2025-02-03 18:53:23.443][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-02-03 18:53:23.443][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:23.444][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-02-03 18:53:23.444][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:23.444][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-03 18:53:23.444][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:23.445][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-03 18:53:23.445][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-03 18:53:23.445][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-03 18:53:23.446][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-02-03 18:53:23.446][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-03 18:53:23.446][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-02-03 18:53:23.446][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-02-03 18:53:23.447][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-03 18:53:23.447][self$setPropertyValue]
biodb.DEBUG[2025-02-03 18:53:23.447][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:23.447][self$setPropertyValue]
biodb.DEBUG[2025-02-03 18:53:23.448][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-03 18:53:23.448][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 18:53:23.448][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 18:53:23.448][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-03 18:53:23.449][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 18:53:23.449][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 18:53:23.449][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-03 18:53:23.449][self$setPropertyValue]
biodb.DEBUG[2025-02-03 18:53:23.450][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-03 18:53:23.450][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-03 18:53:23.450][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-03 18:53:23.450][self$setPropertyValue]
biodb.DEBUG[2025-02-03 18:53:23.451][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-02-03 18:53:23.451][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:23.452][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-02-03 18:53:23.452][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:23.452][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-03 18:53:23.452][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:23.453][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-03 18:53:23.453][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-03 18:53:23.453][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-03 18:53:23.453][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-02-03 18:53:23.454][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-03 18:53:23.454][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-02-03 18:53:23.454][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-02-03 18:53:23.455][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-03 18:53:23.455][self$setPropertyValue]
biodb.DEBUG[2025-02-03 18:53:23.455][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:23.456][self$setPropertyValue]
biodb.DEBUG[2025-02-03 18:53:23.456][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-03 18:53:23.456][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 18:53:23.459][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 18:53:23.460][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-03 18:53:23.460][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 18:53:23.460][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 18:53:23.461][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-03 18:53:23.461][self$setPropertyValue]
biodb.DEBUG[2025-02-03 18:53:23.461][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-03 18:53:23.461][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-03 18:53:23.462][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-03 18:53:23.462][self$setPropertyValue]
biodb.DEBUG[2025-02-03 18:53:23.462][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-02-03 18:53:23.462][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.463][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.463][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.463][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.463][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.464][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.464][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[2025-02-03 18:53:23.464][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.464][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.465][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.465][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.465][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.465][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.465][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.466][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.466][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.466][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.466][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.467][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.467][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.467][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.467][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.467][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.468][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.468][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.468][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.468][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.DEBUG[2025-02-03 18:53:23.468][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.469][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.469][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.469][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.469][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.470][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.470][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.470][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.470][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.470][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.471][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.471][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.471][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.471][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.472][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[2025-02-03 18:53:23.472][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.472][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.472][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.472][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.473][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.473][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.473][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.474][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.474][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.474][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.474][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.474][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.475][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.475][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.475][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.475][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.476][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.476][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.476][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.476][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.476][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.477][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.477][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.477][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.477][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.478][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.478][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.478][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.478][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.479][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[2025-02-03 18:53:23.479][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.479][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.479][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.479][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.480][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.DEBUG[2025-02-03 18:53:23.480][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.480][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.480][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.481][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.481][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.481][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.481][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.481][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.482][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.482][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.482][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-02-03 18:53:23.482][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-02-03 18:53:23.483][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-02-03 18:53:23.483][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-02-03 18:53:23.484][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-02-03 18:53:23.484][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-02-03 18:53:23.484][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-02-03 18:53:23.485][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-02-03 18:53:23.485][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-02-03 18:53:23.485][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-02-03 18:53:23.486][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-02-03 18:53:23.486][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-02-03 18:53:23.486][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-02-03 18:53:23.487][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-02-03 18:53:23.487][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-02-03 18:53:23.488][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-02-03 18:53:23.488][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-02-03 18:53:23.488][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-02-03 18:53:23.489][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-02-03 18:53:23.489][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-02-03 18:53:23.489][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-02-03 18:53:23.490][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-02-03 18:53:23.490][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-02-03 18:53:23.491][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-02-03 18:53:23.491][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-02-03 18:53:23.491][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-02-03 18:53:23.492][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-02-03 18:53:23.492][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-02-03 18:53:23.492][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-02-03 18:53:23.493][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-02-03 18:53:23.493][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-02-03 18:53:23.494][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-02-03 18:53:23.494][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-02-03 18:53:23.494][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-02-03 18:53:23.495][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-02-03 18:53:23.495][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-02-03 18:53:23.495][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-02-03 18:53:23.496][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-02-03 18:53:23.496][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-02-03 18:53:23.496][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-02-03 18:53:23.497][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-02-03 18:53:23.497][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-02-03 18:53:23.498][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-02-03 18:53:23.498][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-02-03 18:53:23.498][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-02-03 18:53:23.499][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-02-03 18:53:23.499][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-02-03 18:53:23.499][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-02-03 18:53:23.500][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-02-03 18:53:23.500][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-02-03 18:53:23.501][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-02-03 18:53:23.501][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-02-03 18:53:23.501][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-02-03 18:53:23.502][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-02-03 18:53:23.502][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-02-03 18:53:23.502][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-02-03 18:53:23.503][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-02-03 18:53:23.503][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-02-03 18:53:23.503][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-02-03 18:53:23.504][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-02-03 18:53:23.504][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-02-03 18:53:23.505][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-02-03 18:53:23.505][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-02-03 18:53:23.506][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-02-03 18:53:23.506][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-02-03 18:53:23.506][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-02-03 18:53:23.507][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-02-03 18:53:23.507][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-02-03 18:53:23.508][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-02-03 18:53:23.508][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-02-03 18:53:23.509][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-02-03 18:53:23.509][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-02-03 18:53:23.510][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-02-03 18:53:23.510][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-02-03 18:53:23.510][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-02-03 18:53:23.511][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-02-03 18:53:23.511][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-02-03 18:53:23.512][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-02-03 18:53:23.512][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-02-03 18:53:23.512][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-02-03 18:53:23.513][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-02-03 18:53:23.513][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-02-03 18:53:23.513][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-02-03 18:53:23.514][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-02-03 18:53:23.514][initialize] This is biodb version 1.15.0.
biodb.DEBUG[2025-02-03 18:53:23.515][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-02-03 18:53:23.515][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.515][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.515][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.516][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[2025-02-03 18:53:23.516][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.516][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.516][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.516][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.517][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.517][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.517][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.517][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.518][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.518][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.518][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.518][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.519][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.519][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.519][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.519][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.519][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.520][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.520][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.520][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.520][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[2025-02-03 18:53:23.521][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.521][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.521][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.521][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.521][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.522][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.522][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[2025-02-03 18:53:23.522][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.522][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.523][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.523][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.523][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.523][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.524][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.524][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.524][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.524][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.524][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.525][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.525][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.525][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.526][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.526][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.526][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.526][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.526][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.527][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.527][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[2025-02-03 18:53:23.527][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.527][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.528][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.528][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.528][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.528][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.528][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[2025-02-03 18:53:23.529][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.529][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.529][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.529][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.530][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.530][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.530][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.530][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.530][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.531][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.531][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.531][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.531][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.532][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[2025-02-03 18:53:23.532][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.532][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.532][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.532][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.533][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.533][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.533][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.533][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.534][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.534][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.534][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.534][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.534][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.535][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.535][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.535][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.535][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.535][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.536][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.536][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.536][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[2025-02-03 18:53:23.536][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.537][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.537][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.537][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.537][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.537][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.538][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.538][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.538][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.538][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.538][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.539][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.539][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.539][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.539][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.540][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.540][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.540][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.540][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.540][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.541][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.541][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.541][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.541][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.541][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.542][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.542][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.542][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.543][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-02-03 18:53:23.543][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-02-03 18:53:23.547][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-02-03 18:53:23.547][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-02-03 18:53:23.547][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:23.547][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-03 18:53:23.548][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:23.548][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-03 18:53:23.548][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:23.548][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-02-03 18:53:23.549][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-02-03 18:53:23.549][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-03 18:53:23.549][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:23.549][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-02-03 18:53:23.550][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-03 18:53:23.550][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-02-03 18:53:23.550][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-02-03 18:53:23.550][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-02-03 18:53:23.550][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-02-03 18:53:23.550][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-02-03 18:53:23.550][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-02-03 18:53:23.550][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-02-03 18:53:23.550][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-02-03 18:53:23.550][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-02-03 18:53:23.550][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-02-03 18:53:23.550][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-02-03 18:53:23.550][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-02-03 18:53:23.551][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-02-03 18:53:23.551][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-02-03 18:53:23.551][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-02-03 18:53:23.551][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-02-03 18:53:23.551][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 18:53:23.551][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 18:53:23.552][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-03 18:53:23.552][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 18:53:23.552][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 18:53:23.552][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-03 18:53:23.553][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-02-03 18:53:23.553][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-02-03 18:53:23.553][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-03 18:53:23.553][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-03 18:53:23.553][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:23.554][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-02-03 18:53:23.554][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-02-03 18:53:23.554][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-02-03 18:53:23.554][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-02-03 18:53:23.555][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-02-03 18:53:23.555][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-02-03 18:53:23.556][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-02-03 18:53:23.556][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-02-03 18:53:23.557][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-02-03 18:53:23.557][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-02-03 18:53:23.558][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-02-03 18:53:23.558][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-02-03 18:53:23.558][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-02-03 18:53:23.559][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-02-03 18:53:23.559][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-02-03 18:53:23.559][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-02-03 18:53:23.560][biodb::testThat]
biodb.INFO [2025-02-03 18:53:23.560][biodb::testThat] Running test function test_chebi_convCasToChebi (" convCasToChebi() works. ").
biodb.INFO [2025-02-03 18:53:23.560][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-03 18:53:23.560][biodb::testThat]
biodb.DEBUG[2025-02-03 18:53:23.561][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-02-03 18:53:23.563][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-03 18:53:23.563][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2025-02-03 18:53:23.563][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 18:53:23.564][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2025-02-03 18:53:23.565][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[2025-02-03 18:53:23.566][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-03 18:53:23.567][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2025-02-03 18:53:23.567][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 18:53:23.568][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2025-02-03 18:53:23.568][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:23.569][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.569][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.571][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.571][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.571][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.571][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.572][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[2025-02-03 18:53:23.573][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-03 18:53:23.573][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2025-02-03 18:53:23.574][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 18:53:23.574][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2025-02-03 18:53:23.575][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:23.575][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.575][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.577][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.577][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.578][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.578][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.584][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:23.584][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.584][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.586][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.586][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.586][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.587][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.588][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[2025-02-03 18:53:23.589][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-03 18:53:23.590][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2025-02-03 18:53:23.590][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 18:53:23.591][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2025-02-03 18:53:23.591][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:23.591][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.591][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.593][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.593][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.594][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.594][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[2025-02-03 18:53:23.595][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[2025-02-03 18:53:23.596][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-03 18:53:23.596][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2025-02-03 18:53:23.596][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 18:53:23.597][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2025-02-03 18:53:23.597][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:23.598][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.598][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.599][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.600][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.600][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.600][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.600][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:23.601][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.601][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.602][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.603][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.603][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.603][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.604][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[2025-02-03 18:53:23.605][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-03 18:53:23.606][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2025-02-03 18:53:23.606][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 18:53:23.606][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2025-02-03 18:53:23.607][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:23.607][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.608][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.609][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.610][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.610][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.611][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.611][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[2025-02-03 18:53:23.612][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-03 18:53:23.613][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2025-02-03 18:53:23.613][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 18:53:23.614][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2025-02-03 18:53:23.614][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:23.614][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.615][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.616][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.616][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.617][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.617][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[2025-02-03 18:53:23.617][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[2025-02-03 18:53:23.619][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-03 18:53:23.619][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70e3912746e7e39b39fbbffe6c90b502".
biodb.TRACE[2025-02-03 18:53:23.620][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 18:53:23.621][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70e3912746e7e39b39fbbffe6c90b502.content".
biodb.DEBUG[2025-02-03 18:53:23.621][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:23.622][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.622][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.624][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.624][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.624][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.624][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.INFO [2025-02-03 18:53:23.626][biodb::testThat]
biodb.INFO [2025-02-03 18:53:23.627][biodb::testThat] Running test function test_chebi_convInchiToChebi (" convInchiToChebi() works. ").
biodb.INFO [2025-02-03 18:53:23.627][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-03 18:53:23.627][biodb::testThat]
biodb.DEBUG[2025-02-03 18:53:23.628][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[2025-02-03 18:53:23.629][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-03 18:53:23.630][cch$loadFileContent] Trying to load 1 files from cache: [1]: "64007787a4f3864bb479683766386808".
biodb.TRACE[2025-02-03 18:53:23.630][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 18:53:23.631][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/64007787a4f3864bb479683766386808.content".
biodb.DEBUG[2025-02-03 18:53:23.631][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:23.631][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.632][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.633][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.634][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.634][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.634][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[2025-02-03 18:53:23.635][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[2025-02-03 18:53:23.637][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-03 18:53:23.638][cch$loadFileContent] Trying to load 1 files from cache: [1]: "7547b08b3ebd50447d61026ab0af8d63".
biodb.TRACE[2025-02-03 18:53:23.638][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 18:53:23.639][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7547b08b3ebd50447d61026ab0af8d63.content".
biodb.DEBUG[2025-02-03 18:53:23.640][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:23.640][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.641][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.643][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.643][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.643][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.643][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.INFO [2025-02-03 18:53:23.645][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-02-03 18:53:23.645][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-02-03 18:53:23.646][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-02-03 18:53:23.646][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-02-03 18:53:23.646][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.646][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.647][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.647][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.647][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.647][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-02-03 18:53:23.649][biodb::testContext]
biodb.INFO [2025-02-03 18:53:23.649][biodb::testContext] ********************************************************************************
biodb.INFO [2025-02-03 18:53:23.649][biodb::testContext] Test context - Test web services
biodb.INFO [2025-02-03 18:53:23.649][biodb::testContext] ********************************************************************************
biodb.INFO [2025-02-03 18:53:23.650][biodb::testContext]
biodb.INFO [2025-02-03 18:53:23.650][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.15.0.
biodb.DEBUG[2025-02-03 18:53:23.651][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-02-03 18:53:23.653][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-02-03 18:53:23.653][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-02-03 18:53:23.653][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-02-03 18:53:23.653][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.654][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.654][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.654][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-02-03 18:53:23.654][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-02-03 18:53:23.655][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.655][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.655][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.655][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-02-03 18:53:23.656][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-02-03 18:53:23.656][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.656][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.656][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.656][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-02-03 18:53:23.657][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-02-03 18:53:23.657][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-02-03 18:53:23.657][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.660][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.661][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.661][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-02-03 18:53:23.661][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-02-03 18:53:23.662][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-02-03 18:53:23.662][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.662][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.662][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.663][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-02-03 18:53:23.663][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-02-03 18:53:23.663][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.663][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.664][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.664][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-02-03 18:53:23.664][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-02-03 18:53:23.665][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-02-03 18:53:23.665][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.665][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.665][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.665][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-02-03 18:53:23.666][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-02-03 18:53:23.666][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.666][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.666][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[2025-02-03 18:53:23.667][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-02-03 18:53:23.667][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-02-03 18:53:23.667][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-02-03 18:53:23.667][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.668][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.668][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.668][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-02-03 18:53:23.668][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-02-03 18:53:23.668][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-02-03 18:53:23.669][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-02-03 18:53:23.669][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-02-03 18:53:23.669][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-02-03 18:53:23.669][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.670][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.670][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.670][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-02-03 18:53:23.670][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-02-03 18:53:23.671][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.671][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.671][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.671][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-02-03 18:53:23.671][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-02-03 18:53:23.672][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.672][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.672][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.672][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-02-03 18:53:23.673][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-02-03 18:53:23.673][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.673][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.673][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.674][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-02-03 18:53:23.674][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-02-03 18:53:23.674][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.674][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.674][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.675][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-02-03 18:53:23.675][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-02-03 18:53:23.675][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.675][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.676][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.676][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-02-03 18:53:23.676][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-02-03 18:53:23.682][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-02-03 18:53:23.682][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.683][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.683][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.683][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-02-03 18:53:23.683][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-02-03 18:53:23.684][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-02-03 18:53:23.684][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.684][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.685][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.685][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-02-03 18:53:23.686][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-02-03 18:53:23.686][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-02-03 18:53:23.686][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:23.686][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-03 18:53:23.687][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:23.687][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-03 18:53:23.687][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-03 18:53:23.687][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-03 18:53:23.688][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-02-03 18:53:23.688][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-03 18:53:23.688][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:23.688][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-02-03 18:53:23.689][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-03 18:53:23.689][self$setPropertyValue]
biodb.DEBUG[2025-02-03 18:53:23.689][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:23.689][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-02-03 18:53:23.689][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-02-03 18:53:23.689][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-02-03 18:53:23.689][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-02-03 18:53:23.689][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-02-03 18:53:23.690][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-03 18:53:23.690][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 18:53:23.690][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 18:53:23.690][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-03 18:53:23.691][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 18:53:23.691][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 18:53:23.691][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-03 18:53:23.691][self$setPropertyValue]
biodb.DEBUG[2025-02-03 18:53:23.692][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-03 18:53:23.692][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-03 18:53:23.692][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-03 18:53:23.692][self$setPropertyValue]
biodb.DEBUG[2025-02-03 18:53:23.693][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-02-03 18:53:23.693][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-02-03 18:53:23.693][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-02-03 18:53:23.694][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:23.694][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-03 18:53:23.694][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:23.694][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-03 18:53:23.695][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-03 18:53:23.695][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-03 18:53:23.695][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-02-03 18:53:23.695][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-03 18:53:23.696][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:23.696][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-02-03 18:53:23.696][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-03 18:53:23.696][self$setPropertyValue]
biodb.DEBUG[2025-02-03 18:53:23.697][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:23.697][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-02-03 18:53:23.697][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-02-03 18:53:23.697][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-02-03 18:53:23.697][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-02-03 18:53:23.697][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-02-03 18:53:23.697][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-03 18:53:23.698][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 18:53:23.698][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 18:53:23.699][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-03 18:53:23.699][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 18:53:23.699][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 18:53:23.699][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-03 18:53:23.700][self$setPropertyValue]
biodb.DEBUG[2025-02-03 18:53:23.700][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-03 18:53:23.700][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-03 18:53:23.700][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-03 18:53:23.701][self$setPropertyValue]
biodb.DEBUG[2025-02-03 18:53:23.701][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-02-03 18:53:23.701][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:23.702][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-02-03 18:53:23.702][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:23.702][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-03 18:53:23.702][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:23.703][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-03 18:53:23.703][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-03 18:53:23.703][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-03 18:53:23.703][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-02-03 18:53:23.704][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-03 18:53:23.704][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-02-03 18:53:23.704][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-02-03 18:53:23.704][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-03 18:53:23.705][self$setPropertyValue]
biodb.DEBUG[2025-02-03 18:53:23.705][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:23.705][self$setPropertyValue]
biodb.DEBUG[2025-02-03 18:53:23.705][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-03 18:53:23.706][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 18:53:23.706][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 18:53:23.706][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-03 18:53:23.706][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 18:53:23.707][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 18:53:23.707][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-03 18:53:23.707][self$setPropertyValue]
biodb.DEBUG[2025-02-03 18:53:23.707][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-03 18:53:23.708][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-03 18:53:23.708][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-03 18:53:23.708][self$setPropertyValue]
biodb.DEBUG[2025-02-03 18:53:23.708][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-02-03 18:53:23.709][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:23.709][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-02-03 18:53:23.709][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:23.710][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-03 18:53:23.710][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:23.710][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-03 18:53:23.710][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-03 18:53:23.711][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-03 18:53:23.711][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-02-03 18:53:23.711][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-03 18:53:23.711][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-02-03 18:53:23.712][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-02-03 18:53:23.712][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-03 18:53:23.712][self$setPropertyValue]
biodb.DEBUG[2025-02-03 18:53:23.712][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:23.713][self$setPropertyValue]
biodb.DEBUG[2025-02-03 18:53:23.713][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-03 18:53:23.713][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 18:53:23.713][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 18:53:23.713][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-03 18:53:23.714][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 18:53:23.714][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 18:53:23.714][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-03 18:53:23.714][self$setPropertyValue]
biodb.DEBUG[2025-02-03 18:53:23.715][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-03 18:53:23.715][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-03 18:53:23.715][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-03 18:53:23.715][self$setPropertyValue]
biodb.DEBUG[2025-02-03 18:53:23.716][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-02-03 18:53:23.716][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.716][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.716][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.717][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.717][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.717][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.717][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.718][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.718][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.718][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.718][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.719][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.719][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.719][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.719][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.719][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.720][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.DEBUG[2025-02-03 18:53:23.720][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.720][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.720][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.720][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.721][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[2025-02-03 18:53:23.721][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.721][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.721][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.722][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.722][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.722][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.722][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.722][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.723][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.723][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.723][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.723][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.724][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.724][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.724][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.724][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.724][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.725][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.725][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.725][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.725][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.725][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.726][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.726][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.726][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.726][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.727][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.727][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.727][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.727][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.727][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.728][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.728][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.728][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.728][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.729][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.729][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.729][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.729][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.729][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[2025-02-03 18:53:23.730][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.730][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.730][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.730][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.731][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.731][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.731][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.731][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.732][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.732][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.DEBUG[2025-02-03 18:53:23.732][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.732][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.732][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.733][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.733][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.733][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.733][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.734][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.734][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.734][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.734][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.735][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.735][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.735][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.735][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[2025-02-03 18:53:23.736][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-02-03 18:53:23.736][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-02-03 18:53:23.736][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-02-03 18:53:23.737][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-02-03 18:53:23.737][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-02-03 18:53:23.738][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-02-03 18:53:23.738][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-02-03 18:53:23.738][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-02-03 18:53:23.739][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-02-03 18:53:23.739][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-02-03 18:53:23.739][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-02-03 18:53:23.740][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-02-03 18:53:23.740][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-02-03 18:53:23.740][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-02-03 18:53:23.756][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-02-03 18:53:23.756][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-02-03 18:53:23.756][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-02-03 18:53:23.757][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-02-03 18:53:23.757][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-02-03 18:53:23.758][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-02-03 18:53:23.758][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-02-03 18:53:23.758][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-02-03 18:53:23.759][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-02-03 18:53:23.759][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-02-03 18:53:23.760][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-02-03 18:53:23.760][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-02-03 18:53:23.760][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-02-03 18:53:23.761][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-02-03 18:53:23.761][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-02-03 18:53:23.761][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-02-03 18:53:23.762][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-02-03 18:53:23.762][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-02-03 18:53:23.763][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-02-03 18:53:23.763][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-02-03 18:53:23.763][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-02-03 18:53:23.764][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-02-03 18:53:23.766][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-02-03 18:53:23.767][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-02-03 18:53:23.767][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-02-03 18:53:23.768][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-02-03 18:53:23.768][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-02-03 18:53:23.768][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-02-03 18:53:23.769][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-02-03 18:53:23.769][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-02-03 18:53:23.769][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-02-03 18:53:23.770][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-02-03 18:53:23.770][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-02-03 18:53:23.771][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-02-03 18:53:23.771][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-02-03 18:53:23.771][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-02-03 18:53:23.772][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-02-03 18:53:23.772][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-02-03 18:53:23.772][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-02-03 18:53:23.773][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-02-03 18:53:23.773][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-02-03 18:53:23.773][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-02-03 18:53:23.774][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-02-03 18:53:23.774][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-02-03 18:53:23.774][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-02-03 18:53:23.775][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-02-03 18:53:23.775][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-02-03 18:53:23.776][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-02-03 18:53:23.776][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-02-03 18:53:23.776][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-02-03 18:53:23.777][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-02-03 18:53:23.777][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-02-03 18:53:23.777][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-02-03 18:53:23.778][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-02-03 18:53:23.778][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-02-03 18:53:23.778][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-02-03 18:53:23.779][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-02-03 18:53:23.779][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-02-03 18:53:23.779][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-02-03 18:53:23.780][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-02-03 18:53:23.780][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-02-03 18:53:23.781][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-02-03 18:53:23.781][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-02-03 18:53:23.781][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-02-03 18:53:23.782][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-02-03 18:53:23.782][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-02-03 18:53:23.782][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-02-03 18:53:23.783][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-02-03 18:53:23.783][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-02-03 18:53:23.783][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-02-03 18:53:23.784][initialize] This is biodb version 1.15.0.
biodb.DEBUG[2025-02-03 18:53:23.784][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-02-03 18:53:23.785][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.785][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.785][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.785][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.785][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.786][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.786][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.786][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.786][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.786][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.787][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[2025-02-03 18:53:23.787][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.787][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.787][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.787][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.788][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.788][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.788][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.788][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.789][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.789][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.789][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.789][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.789][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.789][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[2025-02-03 18:53:23.790][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.790][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.790][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.790][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.790][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.791][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.791][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.791][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.791][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.792][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.792][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.792][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.792][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.792][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.793][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.793][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.793][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.793][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.793][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.794][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.794][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[2025-02-03 18:53:23.794][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.794][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.794][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.795][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.795][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.795][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.795][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.795][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.796][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.796][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.796][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.796][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.796][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.797][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.DEBUG[2025-02-03 18:53:23.797][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.797][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.797][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.797][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.798][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.798][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.798][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.798][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.799][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.799][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.799][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.799][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.799][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.800][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.800][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.800][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.800][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.800][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.801][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.801][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.801][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.801][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.801][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.802][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.802][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.802][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.802][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.802][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[2025-02-03 18:53:23.803][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.803][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.803][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.803][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.803][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.804][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.804][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.804][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.804][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.804][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.805][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.805][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.805][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.805][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[2025-02-03 18:53:23.805][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.806][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.806][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.806][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.806][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.806][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.807][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.807][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.807][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.807][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.807][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.808][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.808][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.808][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.808][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.808][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.809][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.809][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.809][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.809][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.809][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.810][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-02-03 18:53:23.811][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-02-03 18:53:23.811][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-02-03 18:53:23.811][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-02-03 18:53:23.812][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:23.812][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-03 18:53:23.812][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:23.812][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-03 18:53:23.813][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:23.813][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-02-03 18:53:23.813][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-02-03 18:53:23.813][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-03 18:53:23.813][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:23.814][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-02-03 18:53:23.814][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-03 18:53:23.814][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-02-03 18:53:23.814][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-02-03 18:53:23.814][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-02-03 18:53:23.814][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-02-03 18:53:23.814][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-02-03 18:53:23.814][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-02-03 18:53:23.814][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-02-03 18:53:23.814][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-02-03 18:53:23.814][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-02-03 18:53:23.814][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-02-03 18:53:23.814][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-02-03 18:53:23.814][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-02-03 18:53:23.815][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-02-03 18:53:23.815][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-02-03 18:53:23.815][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-02-03 18:53:23.815][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-02-03 18:53:23.815][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 18:53:23.815][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 18:53:23.816][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-03 18:53:23.816][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 18:53:23.816][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 18:53:23.816][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-03 18:53:23.816][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-02-03 18:53:23.816][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-02-03 18:53:23.817][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-03 18:53:23.817][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-03 18:53:23.817][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:23.817][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-02-03 18:53:23.817][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-02-03 18:53:23.818][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-02-03 18:53:23.818][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-02-03 18:53:23.819][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-02-03 18:53:23.819][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-02-03 18:53:23.819][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-02-03 18:53:23.820][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-02-03 18:53:23.821][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-02-03 18:53:23.821][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-02-03 18:53:23.821][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-02-03 18:53:23.822][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-02-03 18:53:23.822][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-02-03 18:53:23.822][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-02-03 18:53:23.823][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-02-03 18:53:23.823][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-02-03 18:53:23.823][biodb::testThat]
biodb.INFO [2025-02-03 18:53:23.824][biodb::testThat] Running test function test.chebi.wsGetLiteEntity (" Web service getLiteEntity works fine. ").
biodb.INFO [2025-02-03 18:53:23.824][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-03 18:53:23.824][biodb::testThat]
biodb.DEBUG[2025-02-03 18:53:23.825][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-02-03 18:53:23.826][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-03 18:53:23.827][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2025-02-03 18:53:23.827][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 18:53:23.828][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2025-02-03 18:53:23.829][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[2025-02-03 18:53:23.830][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-03 18:53:23.831][cch$loadFileContent] Trying to load 1 files from cache: [1]: "04c26672f8368e71348af4b34238160e".
biodb.TRACE[2025-02-03 18:53:23.831][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 18:53:23.832][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content".
biodb.INFO [2025-02-03 18:53:23.835][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-02-03 18:53:23.835][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-02-03 18:53:23.836][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-02-03 18:53:23.836][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-02-03 18:53:23.836][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.836][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.837][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.837][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.837][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.837][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.INFO [2025-02-03 18:53:23.839][biodb::testContext]
biodb.INFO [2025-02-03 18:53:23.839][biodb::testContext] ********************************************************************************
biodb.INFO [2025-02-03 18:53:23.839][biodb::testContext] Test context - Non regression tests
biodb.INFO [2025-02-03 18:53:23.840][biodb::testContext] ********************************************************************************
biodb.INFO [2025-02-03 18:53:23.840][biodb::testContext]
biodb.INFO [2025-02-03 18:53:23.841][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.15.0.
biodb.DEBUG[2025-02-03 18:53:23.841][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-02-03 18:53:23.843][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-02-03 18:53:23.843][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-02-03 18:53:23.844][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-02-03 18:53:23.844][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.844][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.844][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.845][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-02-03 18:53:23.845][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-02-03 18:53:23.845][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.845][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.846][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.846][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-02-03 18:53:23.846][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-02-03 18:53:23.847][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.847][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.847][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.847][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-02-03 18:53:23.848][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-02-03 18:53:23.848][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-02-03 18:53:23.848][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.849][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.849][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[2025-02-03 18:53:23.849][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-02-03 18:53:23.849][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-02-03 18:53:23.850][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-02-03 18:53:23.850][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.850][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.851][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.851][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-02-03 18:53:23.851][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-02-03 18:53:23.852][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.852][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.852][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.853][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-02-03 18:53:23.853][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-02-03 18:53:23.853][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-02-03 18:53:23.854][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.854][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.854][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.854][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-02-03 18:53:23.855][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-02-03 18:53:23.855][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.855][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.859][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.DEBUG[2025-02-03 18:53:23.859][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-02-03 18:53:23.860][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-02-03 18:53:23.860][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-02-03 18:53:23.860][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.861][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.861][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.861][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-02-03 18:53:23.862][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-02-03 18:53:23.862][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-02-03 18:53:23.862][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-02-03 18:53:23.863][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-02-03 18:53:23.863][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-02-03 18:53:23.863][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.863][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.864][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.864][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-02-03 18:53:23.864][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-02-03 18:53:23.865][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.865][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.865][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.866][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-02-03 18:53:23.866][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-02-03 18:53:23.866][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.867][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.867][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.867][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-02-03 18:53:23.868][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-02-03 18:53:23.868][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.868][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.869][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.869][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-02-03 18:53:23.869][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-02-03 18:53:23.870][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.870][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.870][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.871][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-02-03 18:53:23.871][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-02-03 18:53:23.871][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.872][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.872][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.872][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-02-03 18:53:23.873][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-02-03 18:53:23.879][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-02-03 18:53:23.880][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.880][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.880][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.881][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-02-03 18:53:23.881][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-02-03 18:53:23.881][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-02-03 18:53:23.882][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.882][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.882][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.883][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-02-03 18:53:23.883][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-02-03 18:53:23.884][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-02-03 18:53:23.884][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:23.884][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-03 18:53:23.885][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:23.885][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-03 18:53:23.885][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-03 18:53:23.886][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-03 18:53:23.886][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-02-03 18:53:23.887][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-03 18:53:23.887][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:23.887][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-02-03 18:53:23.888][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-03 18:53:23.888][self$setPropertyValue]
biodb.DEBUG[2025-02-03 18:53:23.888][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:23.889][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-02-03 18:53:23.889][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-02-03 18:53:23.889][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-02-03 18:53:23.889][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-02-03 18:53:23.889][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-02-03 18:53:23.889][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-03 18:53:23.890][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 18:53:23.890][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 18:53:23.890][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-03 18:53:23.890][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 18:53:23.891][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 18:53:23.891][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-03 18:53:23.892][self$setPropertyValue]
biodb.DEBUG[2025-02-03 18:53:23.892][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-03 18:53:23.892][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-03 18:53:23.892][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-03 18:53:23.893][self$setPropertyValue]
biodb.DEBUG[2025-02-03 18:53:23.893][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-02-03 18:53:23.894][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-02-03 18:53:23.894][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-02-03 18:53:23.895][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:23.895][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-03 18:53:23.895][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:23.896][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-03 18:53:23.896][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-03 18:53:23.896][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-03 18:53:23.897][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-02-03 18:53:23.897][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-03 18:53:23.897][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:23.898][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-02-03 18:53:23.898][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-03 18:53:23.898][self$setPropertyValue]
biodb.DEBUG[2025-02-03 18:53:23.899][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:23.899][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-02-03 18:53:23.899][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-02-03 18:53:23.899][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-02-03 18:53:23.899][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-02-03 18:53:23.899][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-02-03 18:53:23.899][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-03 18:53:23.900][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 18:53:23.900][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 18:53:23.900][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-03 18:53:23.901][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 18:53:23.901][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 18:53:23.901][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-03 18:53:23.901][self$setPropertyValue]
biodb.DEBUG[2025-02-03 18:53:23.902][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-03 18:53:23.902][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-03 18:53:23.902][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-03 18:53:23.903][self$setPropertyValue]
biodb.DEBUG[2025-02-03 18:53:23.903][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-02-03 18:53:23.904][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:23.904][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-02-03 18:53:23.904][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:23.904][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-03 18:53:23.905][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:23.905][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-03 18:53:23.905][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-03 18:53:23.906][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-03 18:53:23.906][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-02-03 18:53:23.906][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-03 18:53:23.907][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-02-03 18:53:23.907][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-02-03 18:53:23.907][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-03 18:53:23.908][self$setPropertyValue]
biodb.DEBUG[2025-02-03 18:53:23.908][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:23.908][self$setPropertyValue]
biodb.DEBUG[2025-02-03 18:53:23.909][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-03 18:53:23.909][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 18:53:23.909][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 18:53:23.910][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-03 18:53:23.910][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 18:53:23.911][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 18:53:23.911][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-03 18:53:23.911][self$setPropertyValue]
biodb.DEBUG[2025-02-03 18:53:23.911][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-03 18:53:23.912][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-03 18:53:23.912][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-03 18:53:23.912][self$setPropertyValue]
biodb.DEBUG[2025-02-03 18:53:23.912][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-02-03 18:53:23.913][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:23.914][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-02-03 18:53:23.914][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:23.914][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-03 18:53:23.914][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:23.915][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-03 18:53:23.915][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-02-03 18:53:23.915][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-02-03 18:53:23.915][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-02-03 18:53:23.916][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-03 18:53:23.916][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-02-03 18:53:23.916][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-02-03 18:53:23.916][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-03 18:53:23.917][self$setPropertyValue]
biodb.DEBUG[2025-02-03 18:53:23.917][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:23.917][self$setPropertyValue]
biodb.DEBUG[2025-02-03 18:53:23.918][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-02-03 18:53:23.918][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 18:53:23.918][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 18:53:23.919][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-03 18:53:23.919][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 18:53:23.919][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 18:53:23.919][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-03 18:53:23.920][self$setPropertyValue]
biodb.DEBUG[2025-02-03 18:53:23.920][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-03 18:53:23.920][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-03 18:53:23.920][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-02-03 18:53:23.921][self$setPropertyValue]
biodb.DEBUG[2025-02-03 18:53:23.921][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-02-03 18:53:23.921][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.921][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.922][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.922][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.922][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.922][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.923][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.923][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.923][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.923][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.924][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.924][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.924][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.924][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.924][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.925][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.925][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.925][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.925][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.926][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.926][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.926][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.926][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.926][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.927][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.927][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.927][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.927][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.928][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.928][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.928][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.928][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.928][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.929][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.929][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.929][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.929][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[2025-02-03 18:53:23.930][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.930][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.930][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.930][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.930][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.931][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.931][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.931][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.931][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.932][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.932][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.932][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.932][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.932][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.933][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.933][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.933][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.933][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.934][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.934][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.934][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.934][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.934][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.935][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.935][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.935][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.935][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.936][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.936][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.936][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.936][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.936][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.937][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.937][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.937][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.937][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.938][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.938][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.939][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.939][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.939][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.939][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.939][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.940][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.940][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.940][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.940][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.941][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.941][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-02-03 18:53:23.941][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-02-03 18:53:23.942][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-02-03 18:53:23.942][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-02-03 18:53:23.942][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-02-03 18:53:23.943][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-02-03 18:53:23.943][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-02-03 18:53:23.944][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-02-03 18:53:23.944][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-02-03 18:53:23.944][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-02-03 18:53:23.945][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-02-03 18:53:23.945][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-02-03 18:53:23.945][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-02-03 18:53:23.946][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-02-03 18:53:23.946][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-02-03 18:53:23.946][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-02-03 18:53:23.947][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-02-03 18:53:23.947][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-02-03 18:53:23.948][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-02-03 18:53:23.948][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-02-03 18:53:23.948][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-02-03 18:53:23.949][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-02-03 18:53:23.949][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-02-03 18:53:23.949][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-02-03 18:53:23.950][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-02-03 18:53:23.950][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-02-03 18:53:23.951][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-02-03 18:53:23.951][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-02-03 18:53:23.951][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-02-03 18:53:23.952][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-02-03 18:53:23.952][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-02-03 18:53:23.952][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-02-03 18:53:23.953][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-02-03 18:53:23.953][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-02-03 18:53:23.954][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-02-03 18:53:23.954][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-02-03 18:53:23.954][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-02-03 18:53:23.955][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-02-03 18:53:23.955][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-02-03 18:53:23.955][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-02-03 18:53:23.956][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-02-03 18:53:23.956][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-02-03 18:53:23.956][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-02-03 18:53:23.957][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-02-03 18:53:23.957][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-02-03 18:53:23.958][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-02-03 18:53:23.958][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-02-03 18:53:23.958][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-02-03 18:53:23.959][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-02-03 18:53:23.959][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-02-03 18:53:23.962][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-02-03 18:53:23.963][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-02-03 18:53:23.963][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-02-03 18:53:23.964][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-02-03 18:53:23.964][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-02-03 18:53:23.964][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-02-03 18:53:23.965][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-02-03 18:53:23.965][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-02-03 18:53:23.966][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-02-03 18:53:23.966][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-02-03 18:53:23.966][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-02-03 18:53:23.967][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-02-03 18:53:23.967][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-02-03 18:53:23.967][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-02-03 18:53:23.968][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-02-03 18:53:23.968][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-02-03 18:53:23.968][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-02-03 18:53:23.969][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-02-03 18:53:23.969][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-02-03 18:53:23.970][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-02-03 18:53:23.970][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-02-03 18:53:23.970][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-02-03 18:53:23.971][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-02-03 18:53:23.971][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-02-03 18:53:23.971][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-02-03 18:53:23.972][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-02-03 18:53:23.972][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-02-03 18:53:23.972][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-02-03 18:53:23.973][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-02-03 18:53:23.973][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-02-03 18:53:23.973][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-02-03 18:53:23.974][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-02-03 18:53:23.974][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-02-03 18:53:23.975][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-02-03 18:53:23.975][initialize] This is biodb version 1.15.0.
biodb.DEBUG[2025-02-03 18:53:23.975][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-02-03 18:53:23.976][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.976][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.976][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.976][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.977][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.977][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.977][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.977][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.977][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.978][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.978][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.978][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.978][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.979][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.979][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.979][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.979][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.979][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.980][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.980][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.980][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.980][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.980][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.981][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.981][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.981][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.981][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.982][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.982][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.982][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.982][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.982][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.983][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.983][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.983][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.983][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.983][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.984][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.984][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.984][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.984][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.984][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.985][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.985][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.985][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.985][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.986][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.986][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.986][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.986][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.986][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.987][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.987][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.987][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.987][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.987][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.988][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.988][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.988][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.988][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.988][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.989][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.989][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.989][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.989][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.989][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.990][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.990][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.990][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.990][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.991][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.991][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.991][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.991][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.991][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.992][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.992][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.992][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.992][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.993][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.993][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.993][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.993][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.993][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.994][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.994][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.994][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.994][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.995][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.995][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.995][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.995][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.995][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.996][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.996][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.996][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.996][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.997][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.997][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.997][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.997][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.997][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:23.998][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.998][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:23.998][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:23.998][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:23.999][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:23.999][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:23.999][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[2025-02-03 18:53:23.999][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:23.999][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:24.000][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:24.000][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:24.000][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:24.000][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:24.001][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:24.001][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-02-03 18:53:24.001][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:24.001][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:24.001][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:24.002][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:24.002][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:24.002][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-02-03 18:53:24.003][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-02-03 18:53:24.003][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-02-03 18:53:24.004][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-02-03 18:53:24.004][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-02-03 18:53:24.005][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:24.005][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-02-03 18:53:24.005][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:24.005][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-02-03 18:53:24.006][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:24.006][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-02-03 18:53:24.006][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-02-03 18:53:24.006][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-02-03 18:53:24.007][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:24.007][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-02-03 18:53:24.007][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-02-03 18:53:24.007][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-02-03 18:53:24.007][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-02-03 18:53:24.007][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-02-03 18:53:24.007][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-02-03 18:53:24.007][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-02-03 18:53:24.007][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-02-03 18:53:24.007][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-02-03 18:53:24.007][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-02-03 18:53:24.007][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-02-03 18:53:24.007][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-02-03 18:53:24.007][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-02-03 18:53:24.008][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-02-03 18:53:24.008][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-02-03 18:53:24.008][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-02-03 18:53:24.008][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-02-03 18:53:24.008][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-02-03 18:53:24.008][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 18:53:24.009][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 18:53:24.009][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-02-03 18:53:24.009][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-02-03 18:53:24.009][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-02-03 18:53:24.010][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-02-03 18:53:24.010][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-02-03 18:53:24.010][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-02-03 18:53:24.010][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-02-03 18:53:24.010][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-02-03 18:53:24.011][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-02-03 18:53:24.011][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-02-03 18:53:24.011][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-02-03 18:53:24.011][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-02-03 18:53:24.012][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-02-03 18:53:24.012][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-02-03 18:53:24.013][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-02-03 18:53:24.013][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-02-03 18:53:24.014][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-02-03 18:53:24.015][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-02-03 18:53:24.015][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-02-03 18:53:24.015][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-02-03 18:53:24.016][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-02-03 18:53:24.016][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-02-03 18:53:24.016][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-02-03 18:53:24.017][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-02-03 18:53:24.017][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-02-03 18:53:24.017][biodb::testThat]
biodb.INFO [2025-02-03 18:53:24.018][biodb::testThat] Running test function test.chebi.encoding.issue.in.xml (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2025-02-03 18:53:24.018][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-02-03 18:53:24.018][biodb::testThat]
biodb.DEBUG[2025-02-03 18:53:24.019][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-02-03 18:53:24.020][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-03 18:53:24.021][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2025-02-03 18:53:24.021][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 18:53:24.021][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2025-02-03 18:53:24.022][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-02-03 18:53:24.023][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-02-03 18:53:24.024][cch$loadFileContent] Trying to load 1 files from cache: [1]: "04c26672f8368e71348af4b34238160e".
biodb.TRACE[2025-02-03 18:53:24.024][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 18:53:24.025][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content".
biodb.DEBUG[2025-02-03 18:53:24.026][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2025-02-03 18:53:24.026][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-02-03 18:53:24.027][cch$loadFileContent] Trying to load 1 files from cache: [1]: "2571".
biodb.TRACE[2025-02-03 18:53:24.027][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-02-03 18:53:24.028][loadFileContents] Loaded 1 files from cache: [1]: "/Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml".
biodb.DEBUG[2025-02-03 18:53:24.028][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-02-03 18:53:24.029][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-02-03 18:53:24.029][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-02-03 18:53:24.029][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-02-03 18:53:24.030][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:24.030][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:24.032][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:24.032][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:24.032][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:24.032][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-02-03 18:53:24.034][ef$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:24.034][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:24.034][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:24.034][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:24.035][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:24.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:24.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:24.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:24.036][ef$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 18:53:24.036][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 18:53:24.036][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:24.037][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:24.037][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-02-03 18:53:24.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-02-03 18:53:24.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:24.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:24.038][ef$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 18:53:24.039][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 18:53:24.039][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:24.039][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:24.039][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-02-03 18:53:24.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-02-03 18:53:24.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:24.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:24.040][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-02-03 18:53:24.041][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-02-03 18:53:24.041][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:24.041][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:24.042][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-02-03 18:53:24.042][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-02-03 18:53:24.042][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:24.042][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:24.043][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:24.043][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:24.043][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:24.043][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:24.044][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:24.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-02-03 18:53:24.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:24.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:24.045][ef$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 18:53:24.045][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:24.045][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:24.046][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:24.046][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-02-03 18:53:24.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-02-03 18:53:24.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:24.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:24.047][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:24.047][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:24.048][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:24.048][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:24.048][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:24.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-02-03 18:53:24.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:24.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:24.049][ef$get] Asked field names are: name.
biodb.TRACE[2025-02-03 18:53:24.050][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 18:53:24.050][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:24.050][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:24.054][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-02-03 18:53:24.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-02-03 18:53:24.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:24.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:24.055][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 18:53:24.055][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 18:53:24.056][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:24.056][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:24.056][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-02-03 18:53:24.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-02-03 18:53:24.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:24.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:24.058][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 18:53:24.058][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 18:53:24.058][ef$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:24.058][ef$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:24.059][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-02-03 18:53:24.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-02-03 18:53:24.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:24.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:24.060][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:24.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:24.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:24.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:24.061][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:24.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:24.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:24.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:24.062][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:24.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:24.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:24.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:24.063][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-02-03 18:53:24.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-02-03 18:53:24.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:24.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:24.064][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:24.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:24.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:24.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:24.065][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:24.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:24.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:24.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:24.066][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:24.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:24.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:24.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:24.067][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:24.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:24.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:24.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:24.068][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:24.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:24.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:24.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-02-03 18:53:24.069][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-02-03 18:53:24.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-02-03 18:53:24.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-02-03 18:53:24.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-02-03 18:53:24.070][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2025-02-03 18:53:24.071][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-02-03 18:53:24.071][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-02-03 18:53:24.072][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-02-03 18:53:24.072][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-02-03 18:53:24.072][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-02-03 18:53:24.072][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-02-03 18:53:24.073][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-02-03 18:53:24.073][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-02-03 18:53:24.073][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-02-03 18:53:24.073][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 360 ]
>
> proc.time()
user system elapsed
4.649 0.317 9.570
biodbChebi.Rcheck/biodbChebi-Ex.timings
| name | user | system | elapsed | |
| ChebiConn | 0.732 | 0.218 | 2.165 | |
| ChebiEntry | 0.105 | 0.005 | 0.111 | |